From 459507739b6697c9184f0a74662225402a3b14b0 Mon Sep 17 00:00:00 2001 From: Philip Homan Date: Mon, 21 Aug 2023 10:59:07 -0400 Subject: [PATCH 1/4] read+add TCR meta --- NAMESPACE | 2 + R/Process_Raw_Data.R | 240 ++++++++- ...AF1713_1_1_filtered_contig_annotations.csv | 235 +++++++++ ...AF1714_2_1_filtered_contig_annotations.csv | 329 ++++++++++++ ...AF1715_3_1_filtered_contig_annotations.csv | 142 ++++++ ...AF1716_4_1_filtered_contig_annotations.csv | 478 ++++++++++++++++++ ...AF1717_5_1_filtered_contig_annotations.csv | 186 +++++++ tests/testthat/helper-Process_Raw_Data.R | 4 +- tests/testthat/test-Process_Raw_Data.R | 60 ++- 9 files changed, 1658 insertions(+), 18 deletions(-) create mode 100644 tests/testthat/fixtures/Chariou/h5files/SCAF1713_1_1_filtered_contig_annotations.csv create mode 100644 tests/testthat/fixtures/Chariou/h5files/SCAF1714_2_1_filtered_contig_annotations.csv create mode 100644 tests/testthat/fixtures/Chariou/h5files/SCAF1715_3_1_filtered_contig_annotations.csv create mode 100644 tests/testthat/fixtures/Chariou/h5files/SCAF1716_4_1_filtered_contig_annotations.csv create mode 100644 tests/testthat/fixtures/Chariou/h5files/SCAF1717_5_1_filtered_contig_annotations.csv diff --git a/NAMESPACE b/NAMESPACE index 9e8cc5c..5168a76 100755 --- a/NAMESPACE +++ b/NAMESPACE @@ -71,6 +71,7 @@ importFrom(dplyr,mutate) importFrom(dplyr,mutate_if) importFrom(dplyr,pull) importFrom(dplyr,select) +importFrom(dplyr,summarise) importFrom(ggplot2,aes) importFrom(ggplot2,coord_fixed) importFrom(ggplot2,geom_hline) @@ -111,4 +112,5 @@ importFrom(stringr,str_wrap) importFrom(tibble,deframe) importFrom(tibble,rownames_to_column) importFrom(tibble,tibble) +importFrom(tidyr,fill) importFrom(tidyr,pivot_wider) diff --git a/R/Process_Raw_Data.R b/R/Process_Raw_Data.R index bc31352..bfc43c6 100755 --- a/R/Process_Raw_Data.R +++ b/R/Process_Raw_Data.R @@ -36,6 +36,8 @@ #' @importFrom reshape2 melt #' @importFrom magrittr %>% #' @importFrom stringr str_to_title +#' @importFrom dplyr summarise +#' @importFrom tidyr fill #' @importFrom ggplot2 ggplot #' @importFrom RColorBrewer brewer.pal #' @importFrom ggpubr annotate_figure get_legend ggarrange @@ -62,6 +64,7 @@ processRawData <- function(input, ## Functions #### ## --------- ## library(Seurat) + # library(stringr) # Cell Cycle Scoring and Find Variable Features CC_FVF_so <- function(so){ so <- CellCycleScoring(object = so, @@ -164,7 +167,161 @@ processRawData <- function(input, return(so.nf) } +### process and add TCRdata + .addTCR <- function(x) { + # x=sample.names[1] + so=so.orig.nf[[x]] + df=tcr.list[[x]] + df$sample_name <- x + + df$is_cell <- as.logical(df$is_cell) + df$productive <- as.logical(df$productive) + df$high_confidence <- as.logical(df$high_confidence) + df$full_length <- as.logical(df$high_confidence) + + + #filter down to only high confidence,productive contigs with + #sequencable proteins + df <- df[which(df$high_confidence==T & df$cdr3!="None" & df$productive==T ),] + + #collapse beta reads + betaSeq <- df %>% + group_by(barcode) %>% + dplyr::filter(chain == "TRB") %>% + summarise(cell_beta_seq_list = toString((unique(cdr3))), + cell_beta_reads_list = toString(list(reads)), + cell_unique_betas = n_distinct(c(cdr3)), + cell_TRBV_list =toString(unique(v_gene)), + cell_TRBJ_list =toString(unique(j_gene)) + ) + #collapse beta reads + alphaSeq <- df %>% + group_by(barcode) %>% + dplyr::filter(chain == "TRA") %>% + summarise(cell_alpha_seq_list = toString(unique(cdr3)), + cell_alpha_reads_list = toString(list(reads)), + cell_unique_alphas =n_distinct(c(cdr3)), + cell_TRAV_list =paste(c(v_gene),collapse = ", "), + cell_TRAJ_list =paste(c(j_gene),collapse = ", ") + ) + + outdf <- merge(betaSeq,alphaSeq,by = "barcode") + #add marker columns for cells with multiple alpha or beta sequence + outdf <- outdf %>% + group_by(barcode) %>% + mutate(isPolyAlphaCell = if_else(cell_unique_alphas >1,TRUE,FALSE), + isPolyBetaCell = if_else(cell_unique_betas >1,TRUE,FALSE) + ) + + #get the top beta sequence by read + topBetadf <- df %>% + group_by(barcode) %>% + dplyr::filter(chain == "TRB") %>% + arrange(desc(reads)) %>% + mutate(cell_top_beta = if_else((row_number()== 1L),cdr3,NULL), + cell_TRBV = if_else((row_number()== 1L),v_gene,NULL), + cell_TRBJ = if_else((row_number()== 1L),j_gene,NULL)) %>% + dplyr::select(barcode, cell_top_beta,cell_TRBV,cell_TRBJ) %>% + fill(cell_top_beta,.direction = "updown") %>% + fill(cell_TRBV,.direction = "updown") %>% + fill(cell_TRBJ,.direction = "updown") + + outdf <- merge(outdf,topBetadf,by = "barcode") + + #get top alpha + topAlphadf <- df %>% + group_by(barcode) %>% + dplyr::filter(chain == "TRA") %>% + arrange(desc(reads)) %>% + mutate(cell_top_alpha = if_else((row_number()== 1L),cdr3,NULL), + cell_TRAV = if_else((row_number()== 1L),v_gene,NULL), + cell_TRAJ = if_else((row_number()== 1L),j_gene,NULL)) %>% + dplyr::select(barcode, cell_top_alpha,cell_TRAV,cell_TRAJ) %>% + fill(cell_top_alpha,.direction = "updown") %>% + fill(cell_TRAV,.direction = "updown") %>% + fill(cell_TRAJ,.direction = "updown") + + + outdf <- merge(outdf,topAlphadf,by = "barcode") %>% + dplyr::select(barcode, everything()) %>% + distinct() + + + + df <- outdf + + #reannotate clonotypes as distinct ab_pairs + df <- df %>% + mutate(ab_pair = paste(cell_top_alpha,cell_top_beta,sep="&")) + + ab_pair_df <- df %>% + dplyr::select(ab_pair) %>% + distinct() %>% + mutate(clonotype_id = paste("clonotype",row_number(),sep="")) + + #merge this back into the data frame + df = merge(df,ab_pair_df, by = "ab_pair") + + #summarize cell level data if you have not called Integrate + #TCR cluster template + colsToSummarize <- c("cell_top_alpha", + "cell_top_beta", + "clonotype_id", + "vdj_clonotype_id") + summarizeCutOff <- min(10,18) + + for (i in colsToSummarize) { + col <- df[[i]] + valCount <- length(unique(col)) + + if ((valCount >=summarizeCutOff) & + (!is.element(class(df[[i]][1]),c("numeric","integer")))) + { + freqVals <- as.data.frame(-sort(-table(col)))$col[1:summarizeCutOff] + summarized_col = list() + count <- 0 + for (j in col) { + + if (is.na(j) || is.null(j) || (j =="None")) { + count <- count + 1 + summarized_col[count] <- "NULLorNA" + #print("NULLorNA") + } else if (j %in% freqVals){ + count <- count + 1 + summarized_col[count] <- j + #print("valid") + } else { + count <- count + 1 + summarized_col[count] <- "Other" + #print("Other") + } + } + newName = paste("summarized_",i,sep="") + df[[newName]] <- unlist(summarized_col) + } + print("Passed all filters...") + } + df <- df %>% dplyr::select(barcode,everything()) + df <- as.data.frame(df) + + df <- df %>% mutate_if(is.list, as.character) + + + ### Add Metadata to SO + + if (FALSE%in%grepl('G|T|C|A',unique(df$barcode))>1) { + stop("Error Processing TCR data: TCR metadata is empty") + } + rownames(df)=df$barcode + df=df[,!colnames(df)%in%'barcode'] + + so=AddMetaData(so,df) + # so.orig.nf3=so.orig.nf + so@meta.data=replace(so@meta.data, is.na(so@meta.data), "Not captured") + + return(so) + } ## --------------- ## ## Main Code Block #### @@ -186,31 +343,60 @@ processRawData <- function(input, ### Create SO object depending on class of input SOs. if(class(input)=='RFilePaths'){ print(paste0('File Type: ',class(input))) - input <- input$value[grepl(".h5",input$value)] + input.dat <- input$value[grepl("\\.h5",input$value)] + input.tcr <- input$value[grepl("\\.csv",input$value)] + + obj.list = lapply(input.dat, + function(x){ return(Read10X_h5(x, use.names=TRUE)) }) + tcr.list = lapply(input.tcr, + function(x){return(read.delim(x,sep=",", header = T))}) - obj.list <- lapply(input, - function(x) { return(Read10X_h5(x, use.names=TRUE)) }) }else if(class(input)=='FoundryTransformInput'){ print(paste0('File Type: ',class(input))) - input=nidapGetFiles(input,'h5') + input.dat=nidapGetFiles(input,'\\.h5') + input.tcr=nidapGetFiles(input,'\\.csv') - obj.list <- lapply(input, + obj.list <- lapply(input.dat, function(x) { return(Read10X_h5(x, use.names=TRUE)) }) + if (length(input.tcr)>0) { + tcr.list = lapply(input.tcr, + function(x){return(read.delim(x,sep=",", header = T))}) + } + } else if(class(input)=='character'){ - if (sum(grepl('.rds',input))==1) { + if (sum(grepl('\\.rds',input))==1) { ## Log output. cat("1. Reading Seurat Object from dataset: seurat_object.rds\n\n") - obj.list <- readRDS(input) + input.dat=input[grepl('\\.rds',input)] + input.tcr=input[grepl('\\.csv',input)] + + + obj.list <- lapply(input.dat, + function(x) { return(readRDS(x)) }) + if (length(input.tcr)>0) { + tcr.list = lapply(input.tcr, + function(x){return(read.delim(x,sep=",", header = T))}) + } + - } else if (sum(grepl('.h5',input))>0){ + } else if (sum(grepl('\\.h5',input))>0){ ## Log output. cat("1. Processing .h5 files from dataset \n\n") - obj.list <- lapply(input, + input.dat=input[grepl('\\.h5',input)] + input.tcr=input[grepl('\\.csv',input)] + + + obj.list <- lapply(input.dat, function(x) { return(Read10X_h5(x, use.names=TRUE)) }) + if (length(input.tcr)>0) { + tcr.list = lapply(input.tcr, + function(x){return(read.delim(x,sep=",", header = T))}) + } + }else { stop("Incorrect input format") @@ -221,12 +407,29 @@ processRawData <- function(input, ## Clean up sample names - names(obj.list) <- lapply(input, basename) + names(obj.list) <- lapply(input.dat, basename) names(obj.list) <- sapply(names(obj.list), function(x) gsub("_filtered(\\w+)?.h5","", x)) names(obj.list) <- sapply(names(obj.list), function(x) gsub("\\.(\\w+)?","", x)) + + if (length(input.tcr)>0) { + names(tcr.list) <- lapply(input.tcr, basename) + names(tcr.list) <- sapply(names(tcr.list), + function(x) gsub("_filtered(\\w+)?.csv","", x)) + names(tcr.list) <- sapply(names(tcr.list), + function(x) gsub("\\.(\\w+)?","", x)) + + + if (setequal(names(obj.list),names(tcr.list))==F){ + stop("Names from sequencing files do not match TCR metadata files") + } + } + + + + ### Process Metadata table #### if(is.null(sample.metadata.table)==F){ meta_class <- getClass(class(sample.metadata.table)) @@ -308,6 +511,14 @@ processRawData <- function(input, sample.names=names(so.orig.nf) + ### Add TCR Metadata #### + if (length(input.tcr)>0) { + so.orig.nf=lapply(sample.names,FUN = .addTCR) + names(so.orig.nf)=sample.names + } + + + ### Rename Samples #### if(is.null(sample.metadata.table)==F&is.null(rename.col)==F){ if(sample.name.column!=rename.col){ @@ -329,7 +540,7 @@ processRawData <- function(input, sample.name.column,drop=F] sample.name.column=rename.col sample.names=names(so.orig.nf) - cat("Renamed Samples:\n",paste(names(so.orig.nf),collapse = '\n')) + cat("Renamed Samples:\n",paste(names(so.orig.nf),collapse = '\n'),'\n') }else { @@ -337,10 +548,10 @@ processRawData <- function(input, names of your samples") } }else{ - cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n')) + cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n'),"\n") } }else{ - cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n')) + cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n'),"\n") } @@ -377,8 +588,7 @@ processRawData <- function(input, } else { print("No Metadata table was supplied")} - - + ### Remove Sample files #### subsetRegex <- file.filter.regex diff --git a/tests/testthat/fixtures/Chariou/h5files/SCAF1713_1_1_filtered_contig_annotations.csv b/tests/testthat/fixtures/Chariou/h5files/SCAF1713_1_1_filtered_contig_annotations.csv new file mode 100644 index 0000000..fc84fc7 --- /dev/null +++ b/tests/testthat/fixtures/Chariou/h5files/SCAF1713_1_1_filtered_contig_annotations.csv @@ -0,0 +1,235 @@ +barcode,is_cell,contig_id,high_confidence,length,chain,v_gene,d_gene,j_gene,c_gene,full_length,productive,cdr3,cdr3_nt,reads,umis,raw_clonotype_id,raw_consensus_id +AAAGATGTCACCTTAT-1,True,AAAGATGTCACCTTAT-1_contig_1,True,545,TRB,TRBV29,None,TRBJ2-1,TRBC2,True,True,CASSFGRTNYAEQFF,TGTGCTAGCAGTTTCGGACGGACTAACTATGCTGAGCAGTTCTTC,50816,10,clonotype2,clonotype2_consensus_2 +AAAGATGTCACCTTAT-1,True,AAAGATGTCACCTTAT-1_contig_2,True,498,TRA,TRAV1,None,TRAJ30,TRAC,True,True,CAVRAPTNAYKVIF,TGTGCTGTGAGGGCCCCCACAAATGCTTACAAAGTCATCTTT,20474,7,clonotype2,clonotype2_consensus_1 +AAAGTAGGTATCGCAT-1,True,AAAGTAGGTATCGCAT-1_contig_1,True,721,TRB,TRBV19,TRBD1,TRBJ2-2,TRBC2,True,True,CASSRGTGGSGQLYF,TGTGCCAGCAGCCGCGGGACAGGGGGCTCCGGGCAGCTCTACTTT,36634,13,clonotype3,clonotype3_consensus_2 +AAAGTAGGTATCGCAT-1,True,AAAGTAGGTATCGCAT-1_contig_2,True,606,TRA,TRAV14D-3-DV8,None,TRAJ53,TRAC,True,True,CAARNSGGSNYKLTF,TGTGCAGCAAGGAACAGTGGAGGCAGCAATTACAAACTGACATTT,3906,4,clonotype3,clonotype3_consensus_1 +AAAGTAGGTATCGCAT-1,True,AAAGTAGGTATCGCAT-1_contig_3,True,512,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,22936,4,clonotype3,None +AAAGTAGGTATCGCAT-1,True,AAAGTAGGTATCGCAT-1_contig_4,True,303,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,12480,2,clonotype3,None +AAATGCCAGTAGCGGT-1,True,AAATGCCAGTAGCGGT-1_contig_1,True,597,TRA,TRAV7-4,None,TRAJ26,TRAC,True,True,CAASDLNNYAQGLTF,TGTGCAGCTAGTGATTTAAATAACTATGCCCAGGGATTAACCTTC,21054,4,clonotype4,clonotype4_consensus_2 +AAATGCCAGTAGCGGT-1,True,AAATGCCAGTAGCGGT-1_contig_2,True,570,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-4,TRBC1,True,True,CASGDQGGSNERLFF,TGTGCCAGCGGTGACCAGGGTGGGTCCAACGAAAGATTATTTTTC,57128,10,clonotype4,clonotype4_consensus_1 +AACCGCGTCCAACCAA-1,True,AACCGCGTCCAACCAA-1_contig_1,True,499,TRA,TRAV6-5,None,TRAJ17,TRAC,True,True,CALSGHSAGNKLTF,TGTGCTCTGAGTGGACACAGTGCAGGGAACAAGCTAACTTTT,27610,2,clonotype5,clonotype5_consensus_1 +AACCGCGTCCAACCAA-1,True,AACCGCGTCCAACCAA-1_contig_2,True,589,TRA,TRAV7-4,None,TRAJ43,TRAC,True,False,None,None,16652,4,clonotype5,None +AACTGGTCAAGCGTAG-1,True,AACTGGTCAAGCGTAG-1_contig_1,True,562,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGDEWVQDTQYF,TGTGCCAGCGGTGATGAGTGGGTCCAAGACACCCAGTACTTT,61644,6,clonotype6,clonotype6_consensus_2 +AACTGGTCAAGCGTAG-1,True,AACTGGTCAAGCGTAG-1_contig_2,True,528,TRA,TRAV7D-2,None,TRAJ21,TRAC,True,True,CAASRGYNVLYF,TGTGCAGCAAGCAGAGGATACAACGTGCTTTACTTC,16798,2,clonotype6,clonotype6_consensus_1 +AAGGAGCGTTGCTCCT-1,True,AAGGAGCGTTGCTCCT-1_contig_1,True,514,TRB,TRBV14,None,TRBJ2-7,TRBC2,True,True,CASRQTGYEQYF,TGTGCCAGCAGACAGACAGGCTATGAACAGTACTTC,60078,7,clonotype7,clonotype7_consensus_2 +AAGGAGCGTTGCTCCT-1,True,AAGGAGCGTTGCTCCT-1_contig_2,True,538,TRA,TRAV8D-1,None,TRAJ44,TRAC,True,True,CATGSGGKLTL,TGTGCTACTGGCAGTGGTGGAAAACTCACTTTG,7086,2,clonotype7,clonotype7_consensus_1 +AAGTCTGAGTGGTAGC-1,True,AAGTCTGAGTGGTAGC-1_contig_1,True,530,TRA,TRAV16N,None,TRAJ45,TRAC,True,True,CAMREANTGGADRLTF,TGTGCTATGAGAGAGGCTAATACAGGAGGTGCAGATAGACTCACCTTT,818,5,clonotype8,clonotype8_consensus_1 +AAGTCTGAGTGGTAGC-1,True,AAGTCTGAGTGGTAGC-1_contig_2,True,645,TRB,TRBV2,None,TRBJ1-6,TRBC1,True,True,CASSQDGGYNSPLYF,TGTGCCAGCAGCCAAGATGGGGGCTATAATTCGCCCCTCTACTTT,440,6,clonotype8,clonotype8_consensus_2 +AAGTCTGAGTGGTAGC-1,True,AAGTCTGAGTGGTAGC-1_contig_3,True,328,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,3136,11,clonotype8,None +ACACTGAAGTTCGCAT-1,True,ACACTGAAGTTCGCAT-1_contig_1,True,713,TRA,TRAV9N-4,None,TRAJ15,TRAC,True,True,CAVSAYQGGRALIF,TGTGCTGTGAGCGCGTACCAGGGAGGCAGAGCTCTGATATTT,38776,3,clonotype9,clonotype9_consensus_1 +ACACTGAAGTTCGCAT-1,True,ACACTGAAGTTCGCAT-1_contig_2,True,558,TRB,TRBV20,None,TRBJ1-2,TRBC1,True,True,CGAKQTNSDYTF,TGTGGTGCTAAACAAACAAACTCCGACTACACCTTC,38630,3,clonotype9,clonotype9_consensus_2 +ACAGCCGCAGACAGGT-1,True,ACAGCCGCAGACAGGT-1_contig_1,True,560,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,516,11,clonotype10,clonotype10_consensus_1 +ACATCAGAGAGGGATA-1,True,ACATCAGAGAGGGATA-1_contig_1,True,571,TRB,TRBV1,None,TRBJ2-5,TRBC2,True,True,CTCSARDRVKDTQYF,TGCACCTGCAGTGCCCGGGACAGGGTTAAAGACACCCAGTACTTT,43510,8,clonotype11,clonotype11_consensus_1 +ACATCAGAGAGGGATA-1,True,ACATCAGAGAGGGATA-1_contig_2,True,422,TRA,None,None,TRAJ32,TRAC,False,False,None,None,6166,1,clonotype11,None +ACATCAGAGAGGGATA-1,True,ACATCAGAGAGGGATA-1_contig_3,True,574,Multi,TRDV1,None,TRAJ50,TRAC,True,False,CGGKAFASSSFSKLVF,TGTGGAGGGAAAGCTTTCGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,25906,8,clonotype11,None +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_1,True,557,TRA,TRAV6-2,None,TRAJ9,TRAC,True,True,CVRGNMGYKLTF,TGTGTTAGAGGGAACATGGGCTACAAACTTACCTTC,1040,8,clonotype12,clonotype12_consensus_2 +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_2,True,701,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASRDRSYNYAEQFF,TGTGCCAGCAGGGACAGGTCCTATAACTATGCTGAGCAGTTCTTC,1798,12,clonotype12,clonotype12_consensus_3 +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_3,True,570,TRA,TRAV2,None,TRAJ15,TRAC,True,True,CIVTVPYQGGRALIF,TGCATTGTGACTGTCCCCTACCAGGGAGGCAGAGCTCTGATATTT,538,7,clonotype12,clonotype12_consensus_1 +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_4,True,506,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,1846,13,clonotype12,None +ACGCCGATCCTTTCGG-1,True,ACGCCGATCCTTTCGG-1_contig_1,True,556,TRA,TRAV4-3,None,TRAJ21,TRAC,True,True,CAAERPNYNVLYF,TGTGCTGCTGAGAGGCCTAATTACAACGTGCTTTACTTC,21204,9,clonotype13,clonotype13_consensus_2 +ACGCCGATCCTTTCGG-1,True,ACGCCGATCCTTTCGG-1_contig_2,True,494,TRB,TRBV31,None,TRBJ2-4,TRBC2,True,True,CAWRRTGGDQNTLYF,TGTGCCTGGAGAAGGACAGGGGGCGATCAAAACACCTTGTACTTT,23502,6,clonotype13,clonotype13_consensus_1 +ACGCCGATCCTTTCGG-1,True,ACGCCGATCCTTTCGG-1_contig_3,True,635,TRB,None,None,TRBJ1-1,TRBC1,False,False,None,None,18264,5,clonotype13,None +ACGCCGATCCTTTCGG-1,True,ACGCCGATCCTTTCGG-1_contig_4,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,16144,5,clonotype13,None +AGGCCACGTTACGCGC-1,True,AGGCCACGTTACGCGC-1_contig_1,True,555,TRB,TRBV16,None,TRBJ2-7,TRBC2,True,True,CASSFRDWGASYEQYF,TGTGCAAGCAGCTTCCGGGACTGGGGGGCCTCCTATGAACAGTACTTC,31338,9,clonotype1,clonotype1_consensus_1 +AGGCCACGTTACGCGC-1,True,AGGCCACGTTACGCGC-1_contig_2,True,665,TRA,TRAV14D-1,None,TRAJ48,TRAC,True,True,CAASNYGNEKITF,TGTGCAGCAAGTAACTATGGAAATGAGAAAATAACTTTT,28520,7,clonotype1,clonotype1_consensus_2 +AGGCCACGTTACGCGC-1,True,AGGCCACGTTACGCGC-1_contig_3,True,413,TRA,None,None,TRAJ26,TRAC,False,False,None,None,14590,3,clonotype1,None +AGGGATGCAATTCCTT-1,True,AGGGATGCAATTCCTT-1_contig_1,True,505,TRB,TRBV13-1,None,TRBJ2-5,TRBC2,True,True,CASRGQKDTQYF,TGTGCCAGCAGGGGACAGAAAGACACCCAGTACTTT,69062,17,clonotype14,clonotype14_consensus_1 +AGTGAGGTCATCATTC-1,True,AGTGAGGTCATCATTC-1_contig_1,True,721,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSIAPVSNERLFF,TGTGCCAGCAGTATAGCTCCAGTTTCCAACGAAAGATTATTTTTC,3760,22,clonotype15,clonotype15_consensus_1 +AGTGAGGTCATCATTC-1,True,AGTGAGGTCATCATTC-1_contig_2,True,488,TRB,TRBV31,None,TRBJ1-6,TRBC1,True,False,None,None,2546,11,clonotype15,None +AGTGAGGTCATCATTC-1,True,AGTGAGGTCATCATTC-1_contig_3,True,365,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,12828,42,clonotype15,None +ATAGACCGTTAAAGTG-1,True,ATAGACCGTTAAAGTG-1_contig_1,True,523,TRB,TRBV31,None,TRBJ2-7,TRBC2,True,True,CAWSIPRQGAWEQYF,TGTGCCTGGAGCATTCCTCGACAGGGGGCGTGGGAACAGTACTTC,66062,5,clonotype16,clonotype16_consensus_2 +ATAGACCGTTAAAGTG-1,True,ATAGACCGTTAAAGTG-1_contig_2,True,623,TRA,TRAV12-3,None,TRAJ32,TRAC,True,True,CALSYYGGSGNKLIF,TGTGCTTTGAGTTATTATGGGGGCAGTGGCAACAAGCTCATCTTT,10612,2,clonotype16,clonotype16_consensus_1 +ATCACGACATAACCTG-1,True,ATCACGACATAACCTG-1_contig_1,True,571,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGDDRGGTQYF,TGTGCCAGCGGTGATGACAGGGGAGGCACCCAGTACTTT,36714,4,clonotype17,clonotype17_consensus_2 +ATCACGACATAACCTG-1,True,ATCACGACATAACCTG-1_contig_2,True,571,TRA,TRAV13-1,None,TRAJ31,TRAC,True,True,CAMNNNNRIFF,TGTGCTATGAATAACAATAACAGAATCTTCTTT,10690,2,clonotype17,clonotype17_consensus_1 +ATCACGACATAACCTG-1,True,ATCACGACATAACCTG-1_contig_3,True,651,TRA,TRAV7-1,None,TRAJ21,TRAC,True,True,CAVSMMPNYNVLYF,TGTGCAGTGAGCATGATGCCTAATTACAACGTGCTTTACTTC,11156,4,clonotype17,clonotype17_consensus_3 +ATCACGACATAACCTG-1,True,ATCACGACATAACCTG-1_contig_4,True,437,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,19478,2,clonotype17,None +ATTACTCCATGCCCGA-1,True,ATTACTCCATGCCCGA-1_contig_1,True,643,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,True,CTCSAQGAQGTEVFF,TGCACCTGCAGTGCGCAGGGGGCGCAGGGCACAGAAGTCTTCTTT,738,7,clonotype18,clonotype18_consensus_1 +ATTACTCCATGCCCGA-1,True,ATTACTCCATGCCCGA-1_contig_2,True,355,TRA,TRAV6-6,None,TRAJ15,TRAC,True,False,CALGDPQGGRALIF,TGTGCTCTGGGTGATCCCCAGGGAGGCAGAGCTCTGATATTT,246,1,clonotype18,None +ATTACTCCATGCCCGA-1,True,ATTACTCCATGCCCGA-1_contig_3,True,393,TRA,TRAV6-6,None,TRAJ15,TRAC,True,False,CALGDPQGGRALIF,TGTGCTCTGGGTGATCCCCAGGGAGGCAGAGCTCTGATATTT,106,2,clonotype18,None +ATTATCCGTCCTAGCG-1,True,ATTATCCGTCCTAGCG-1_contig_1,True,544,TRA,TRAV13-2,None,TRAJ30,TRAC,True,True,CAIDRDTNAYKVIF,TGTGCTATAGACCGTGACACAAATGCTTACAAAGTCATCTTT,45652,5,clonotype19,clonotype19_consensus_2 +ATTATCCGTCCTAGCG-1,True,ATTATCCGTCCTAGCG-1_contig_2,True,527,TRB,TRBV13-3,None,TRBJ2-4,TRBC2,True,True,CASSDWGGQNTLYF,TGTGCCAGCAGTGATTGGGGGGGGCAAAACACCTTGTACTTT,23380,3,clonotype19,clonotype19_consensus_1 +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_1,True,586,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSANERLFF,TGTGCCAGCAGTGCCAACGAAAGATTATTTTTC,964,8,clonotype20,clonotype20_consensus_2 +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_2,True,597,TRA,TRAV12D-2,None,TRAJ49,TRAC,True,True,CALSAPNTGYQNFYF,TGTGCTCTGAGTGCTCCGAACACGGGTTACCAGAACTTCTATTTT,366,4,clonotype20,clonotype20_consensus_1 +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_3,True,328,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,336,2,clonotype20,None +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_4,True,364,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,180,2,clonotype20,None +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_5,True,363,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,176,1,clonotype20,None +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_6,True,571,Multi,TRAV8D-2,None,TRDJ1,TRAC,True,False,CATDVGGRRDTS,TGTGCTACAGACGTGGGGGGGCGGAGGGATACGAGC,260,3,clonotype20,None +CACAAACGTTAAGTAG-1,True,CACAAACGTTAAGTAG-1_contig_1,True,555,TRA,TRAV8D-2,None,TRAJ26,TRAC,True,True,CATDNYAQGLTF,TGTGCTACAGATAACTATGCCCAGGGATTAACCTTC,36432,8,clonotype21,clonotype21_consensus_1 +CACAAACGTTAAGTAG-1,True,CACAAACGTTAAGTAG-1_contig_2,True,518,TRB,TRBV13-1,None,TRBJ2-2,TRBC2,True,True,CASSGDRDTGQLYF,TGTGCCAGCAGCGGGGACAGGGACACCGGGCAGCTCTACTTT,33608,8,clonotype21,clonotype21_consensus_2 +CACAAACGTTAAGTAG-1,True,CACAAACGTTAAGTAG-1_contig_3,True,517,TRA,TRAV6D-4,None,TRAJ31,TRAC,True,False,CSGPNNNRIFF,TGCTCTGGCCCCAACAATAACAGAATCTTCTTT,8522,2,clonotype21,None +CACACAACAGGGTACA-1,True,CACACAACAGGGTACA-1_contig_1,True,544,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGARAWGSYEQYF,TGTGGTGCTAGGGCCTGGGGGTCCTATGAACAGTACTTC,72746,12,clonotype22,clonotype22_consensus_1 +CACACAACAGGGTACA-1,True,CACACAACAGGGTACA-1_contig_2,True,536,Multi,TRDV1,None,TRAJ34,TRAC,True,False,CGGKGRTSNTDKVVF,TGTGGAGGGAAAGGGAGGACTTCCAATACCGACAAAGTCGTCTTT,6188,1,clonotype22,None +CACACCTAGGGCACTA-1,True,CACACCTAGGGCACTA-1_contig_1,True,715,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSIHANTEVFF,TGTGCCAGCAGTATCCACGCAAACACAGAAGTCTTCTTT,1766,26,clonotype23,clonotype23_consensus_1 +CACACCTAGGGCACTA-1,True,CACACCTAGGGCACTA-1_contig_2,True,545,TRA,TRAV9-1,None,TRAJ56,TRAC,True,True,CAVSATGGNNKLTF,TGTGCTGTGAGCGCTACTGGAGGCAATAATAAGCTGACTTTT,256,11,clonotype23,clonotype23_consensus_2 +CACCAGGGTAAGTAGT-1,True,CACCAGGGTAAGTAGT-1_contig_1,True,569,TRB,TRBV2,None,TRBJ2-5,TRBC2,True,True,CASSQDGTGQDTQYF,TGTGCCAGCAGCCAAGACGGGACTGGACAAGACACCCAGTACTTT,1116,11,clonotype24,clonotype24_consensus_1 +CACCAGGGTAAGTAGT-1,True,CACCAGGGTAAGTAGT-1_contig_2,True,565,TRA,TRAV4-4-DV10,None,TRAJ49,TRAC,True,True,CAAEAGPGYQNFYF,TGTGCTGCTGAGGCAGGGCCGGGTTACCAGAACTTCTATTTT,1252,13,clonotype24,clonotype24_consensus_2 +CACCAGGGTAGCGTAG-1,True,CACCAGGGTAGCGTAG-1_contig_1,True,575,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSDKISNERLFF,TGTGCCAGCAGTGATAAAATTTCCAACGAAAGATTATTTTTC,42294,6,clonotype25,clonotype25_consensus_1 +CACCAGGGTAGCGTAG-1,True,CACCAGGGTAGCGTAG-1_contig_2,True,617,TRA,TRAV3-1,None,TRAJ35,TRAC,False,False,CAVSAGFASALTF,TGCGCAGTCAGTGCAGGCTTTGCAAGTGCGCTGACATTT,19912,3,clonotype25,None +CACCAGGGTAGCGTAG-1,True,CACCAGGGTAGCGTAG-1_contig_3,True,335,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,17134,2,clonotype25,None +CACCAGGGTGCCTGGT-1,True,CACCAGGGTGCCTGGT-1_contig_1,True,568,TRB,TRBV1,TRBD2,TRBJ2-7,TRBC2,True,True,CTCSAGLGGPEQYF,TGCACCTGCAGTGCGGGACTGGGGGGGCCGGAACAGTACTTC,43520,7,clonotype26,clonotype26_consensus_2 +CACCAGGGTGCCTGGT-1,True,CACCAGGGTGCCTGGT-1_contig_2,True,567,TRA,TRAV8D-2,None,TRAJ52,TRAC,True,True,CATDRGTGANTGKLTF,TGTGCTACAGATAGGGGCACTGGAGCTAACACTGGAAAGCTCACGTTT,35340,7,clonotype26,clonotype26_consensus_1 +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_1,True,600,TRA,TRAV12D-2,None,TRAJ56,TRAC,True,True,CALSSTGGNNKLTF,TGTGCTCTGAGTTCTACTGGAGGCAATAATAAGCTGACTTTT,5214,30,clonotype27,clonotype27_consensus_1 +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_2,True,575,TRB,TRBV12-1,None,TRBJ2-4,TRBC2,True,True,CASSLEGSQNTLYF,TGTGCCAGCTCTCTCGAGGGTAGTCAAAACACCTTGTACTTT,720,7,clonotype27,clonotype27_consensus_2 +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_3,True,365,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,2052,10,clonotype27,None +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_4,True,326,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,888,3,clonotype27,None +CATGCCTGTATTCGTG-1,True,CATGCCTGTATTCGTG-1_contig_1,True,573,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-1,TRBC2,True,True,CASGDATGLNYAEQFF,TGTGCCAGCGGTGATGCAACAGGGCTAAACTATGCTGAGCAGTTCTTC,1568,15,clonotype28,clonotype28_consensus_2 +CATGCCTGTATTCGTG-1,True,CATGCCTGTATTCGTG-1_contig_2,True,570,TRA,TRAV2,None,TRAJ12,TRAC,True,True,CIVTDTGTGGYKVVF,TGCATTGTGACTGACACCGGGACTGGAGGCTATAAAGTGGTCTTT,918,8,clonotype28,clonotype28_consensus_1 +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_1,True,560,TRB,TRBV2,None,TRBJ1-5,TRBC1,True,True,CASSQDYNQAPLF,TGTGCCAGCAGCCAAGATTACAACCAGGCTCCGCTTTTT,188,2,clonotype29,clonotype29_consensus_1 +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_2,True,354,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,1262,4,clonotype29,None +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_3,True,336,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,342,1,clonotype29,None +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSQGLGDSYEQYF,TGTGCCAGCAGCCAAGGACTGGGGGACTCCTATGAACAGTACTTC,1144,10,clonotype30,clonotype30_consensus_2 +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_2,True,534,TRA,TRAV7-3,None,TRAJ40,TRAC,True,True,CAVSIGTGNYKYVF,TGTGCAGTGAGCATTGGTACAGGAAACTACAAATACGTCTTT,1032,13,clonotype30,clonotype30_consensus_1 +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_3,True,524,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,False,None,None,444,3,clonotype30,None +CCTCTGAAGAGTGACC-1,True,CCTCTGAAGAGTGACC-1_contig_1,True,597,TRA,TRAV7-4,None,TRAJ48,TRAC,True,True,CAASPPNYGNEKITF,TGTGCAGCTAGCCCCCCCAACTATGGAAATGAGAAAATAACTTTT,65014,8,clonotype31,clonotype31_consensus_1 +CCTCTGAAGAGTGACC-1,True,CCTCTGAAGAGTGACC-1_contig_2,True,305,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,12980,1,clonotype31,None +CGAGCCAAGAAACCAT-1,True,CGAGCCAAGAAACCAT-1_contig_1,True,555,TRB,TRBV16,None,TRBJ2-7,TRBC2,True,True,CASSFRDWGASYEQYF,TGTGCAAGCAGCTTCCGGGACTGGGGGGCCTCCTATGAACAGTACTTC,57554,9,clonotype1,clonotype1_consensus_1 +CGAGCCAAGAAACCAT-1,True,CGAGCCAAGAAACCAT-1_contig_2,True,629,TRA,TRAV14D-1,None,TRAJ48,TRAC,True,True,CAASNYGNEKITF,TGTGCAGCAAGTAACTATGGAAATGAGAAAATAACTTTT,14312,2,clonotype1,clonotype1_consensus_2 +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_1,True,519,TRB,TRBV13-3,None,TRBJ1-2,TRBC1,True,True,CASSDAWGPDYTF,TGTGCCAGCAGTGATGCATGGGGCCCCGACTACACCTTC,296,2,clonotype32,clonotype32_consensus_1 +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_2,True,531,TRA,TRAV7-3,None,TRAJ12,None,True,False,CSKTGGYKVVF,TGCAGTAAGACTGGAGGCTATAAAGTGGTCTTT,46,1,clonotype32,None +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_3,True,503,TRB,None,None,TRBJ1-1,TRBC1,False,False,None,None,296,2,clonotype32,None +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_4,True,333,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,1064,3,clonotype32,None +CGGACTGGTCAGGACA-1,True,CGGACTGGTCAGGACA-1_contig_1,True,525,TRB,TRBV5,None,TRBJ1-4,TRBC1,True,True,CASSQEGGLSNERLFF,TGTGCCAGCAGCCAAGAGGGAGGGCTTTCCAACGAAAGATTATTTTTC,52156,7,clonotype33,clonotype33_consensus_2 +CGGACTGGTCAGGACA-1,True,CGGACTGGTCAGGACA-1_contig_2,True,591,TRA,TRAV7-4,None,TRAJ57,TRAC,True,True,CAASEGGSAKLIF,TGTGCAGCTAGTGAAGGAGGGTCTGCGAAGCTCATCTTT,26336,3,clonotype33,clonotype33_consensus_1 +CGGACTGTCCACGAAT-1,True,CGGACTGTCCACGAAT-1_contig_1,True,655,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,582,16,clonotype34,clonotype34_consensus_2 +CGGACTGTCCACGAAT-1,True,CGGACTGTCCACGAAT-1_contig_2,True,520,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,428,6,clonotype34,clonotype34_consensus_1 +CGGACTGTCCACGAAT-1,True,CGGACTGTCCACGAAT-1_contig_3,True,368,TRB,None,None,TRBJ1-5,TRBC1,False,False,None,None,502,4,clonotype34,None +CGGAGTCGTAAGTGGC-1,True,CGGAGTCGTAAGTGGC-1_contig_1,True,718,TRB,TRBV19,None,TRBJ1-3,TRBC1,True,True,CASSPPGEGNTLYF,TGTGCCAGCAGTCCCCCGGGGGAAGGAAATACGCTCTATTTT,57520,8,clonotype35,clonotype35_consensus_2 +CGGAGTCGTAAGTGGC-1,True,CGGAGTCGTAAGTGGC-1_contig_2,True,588,TRA,TRAV7-4,None,TRAJ49,TRAC,True,True,CAGNTGYQNFYF,TGTGCAGGGAACACGGGTTACCAGAACTTCTATTTT,16208,4,clonotype35,clonotype35_consensus_1 +CGGAGTCGTAAGTGGC-1,True,CGGAGTCGTAAGTGGC-1_contig_3,True,466,TRA,None,None,TRAJ32,TRAC,False,False,None,None,2758,1,clonotype35,None +CGTAGCGTCAAGGCTT-1,True,CGTAGCGTCAAGGCTT-1_contig_1,True,513,TRA,TRAV7-3,None,TRAJ40,TRAC,True,True,CAVSMGTGNYKYVF,TGTGCAGTGAGCATGGGTACAGGAAACTACAAATACGTCTTT,52794,8,clonotype36,clonotype36_consensus_1 +CGTCACTAGATACACA-1,True,CGTCACTAGATACACA-1_contig_1,True,513,TRB,TRBV13-1,None,TRBJ1-5,TRBC1,True,True,CASSVSRDRNQAPLF,TGTGCCAGCAGTGTCTCCCGGGACAGAAACCAGGCTCCGCTTTTT,1084,5,clonotype37,clonotype37_consensus_1 +CGTCCATGTTTGGGCC-1,True,CGTCCATGTTTGGGCC-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-1,TRBC2,True,True,CASSQETGVYAEQFF,TGTGCCAGCAGCCAAGAGACTGGGGTCTATGCTGAGCAGTTCTTC,40270,8,clonotype38,clonotype38_consensus_2 +CGTCCATGTTTGGGCC-1,True,CGTCCATGTTTGGGCC-1_contig_2,True,529,TRA,TRAV8D-1,None,TRAJ22,TRAC,True,True,CATDASSGSWQLIF,TGTGCTACTGATGCATCTTCTGGCAGCTGGCAACTCATCTTT,13218,5,clonotype38,clonotype38_consensus_1 +CGTCCATGTTTGGGCC-1,True,CGTCCATGTTTGGGCC-1_contig_3,True,416,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,18384,5,clonotype38,None +CGTCCATGTTTGGGCC-1,True,CGTCCATGTTTGGGCC-1_contig_4,True,344,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,4682,1,clonotype38,None +CGTGTCTAGTGCCAGA-1,True,CGTGTCTAGTGCCAGA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,1190,12,clonotype39,clonotype39_consensus_2 +CGTGTCTAGTGCCAGA-1,True,CGTGTCTAGTGCCAGA-1_contig_2,True,549,TRA,TRAV7-3,None,TRAJ12,TRAC,True,True,CAVSMGTGGYKVVF,TGTGCAGTGAGCATGGGGACTGGAGGCTATAAAGTGGTCTTT,1244,13,clonotype39,clonotype39_consensus_1 +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_1,True,567,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-3,TRBC1,True,True,CASGDDNSGNTLYF,TGTGCCAGCGGTGATGATAATTCTGGAAATACGCTCTATTTT,1530,12,clonotype40,clonotype40_consensus_1 +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_2,True,332,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,684,2,clonotype40,None +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_3,True,381,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,1182,6,clonotype40,None +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_4,True,386,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,484,4,clonotype40,None +CTCGTCAGTCACACGC-1,True,CTCGTCAGTCACACGC-1_contig_1,True,521,TRB,TRBV29,None,TRBJ1-2,TRBC1,True,True,CASIGPNSDYTF,TGTGCTAGCATCGGACCGAACTCCGACTACACCTTC,40120,10,clonotype41,clonotype41_consensus_2 +CTCGTCAGTCACACGC-1,True,CTCGTCAGTCACACGC-1_contig_2,True,544,TRA,TRAV6N-7,None,TRAJ39,TRAC,True,True,CALRNNAGAKLTF,TGTGCTCTGAGGAATAATGCAGGTGCCAAGCTCACATTC,17782,3,clonotype41,clonotype41_consensus_1 +CTCGTCAGTCACACGC-1,True,CTCGTCAGTCACACGC-1_contig_3,True,595,TRA,TRAV13-1,None,TRAJ32,TRAC,True,False,None,None,8258,1,clonotype41,None +CTGAAGTGTGATAAAC-1,True,CTGAAGTGTGATAAAC-1_contig_1,True,559,TRA,TRAV4-3,None,TRAJ22,TRAC,True,True,CAAEAPSGSWQLIF,TGTGCTGCTGAGGCCCCTTCTGGCAGCTGGCAACTCATCTTT,49124,7,clonotype42,clonotype42_consensus_1 +CTGAAGTGTGATAAAC-1,True,CTGAAGTGTGATAAAC-1_contig_2,True,582,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGDGTGGLNQDTQYF,TGTGCCAGCGGTGATGGGACAGGGGGACTTAACCAAGACACCCAGTACTTT,26930,2,clonotype42,clonotype42_consensus_2 +CTGGTCTAGTGTACCT-1,True,CTGGTCTAGTGTACCT-1_contig_1,True,598,TRB,TRBV2,None,TRBJ2-7,TRBC2,True,True,CASSQERDNYEQYF,TGTGCCAGCAGCCAAGAAAGGGACAATTATGAACAGTACTTC,630,8,clonotype43,clonotype43_consensus_2 +CTGGTCTAGTGTACCT-1,True,CTGGTCTAGTGTACCT-1_contig_2,True,512,TRA,TRAV6-6,None,TRAJ34,TRAC,True,True,CALGGANTDKVVF,TGTGCTCTGGGTGGAGCCAATACCGACAAAGTCGTCTTT,1064,8,clonotype43,clonotype43_consensus_1 +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCTGGGACAGGGAACACAGAAGTCTTCTTT,4254,17,clonotype44,clonotype44_consensus_1 +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_2,True,400,TRB,None,None,TRBJ1-4,TRBC1,False,False,None,None,1186,5,clonotype44,None +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_3,True,474,TRA,TRAV9-4,None,TRAJ17,TRAC,True,False,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,206,3,clonotype44,None +CTTCTCTCATTCCTGC-1,True,CTTCTCTCATTCCTGC-1_contig_1,True,514,TRB,TRBV14,None,TRBJ2-7,TRBC2,True,True,CASRQTVYEQYF,TGTGCCAGCAGACAGACTGTCTATGAACAGTACTTC,29690,15,clonotype45,clonotype45_consensus_1 +CTTCTCTCATTCCTGC-1,True,CTTCTCTCATTCCTGC-1_contig_2,True,538,TRA,TRAV13D-2,None,TRAJ39,TRAC,True,True,CAILNNAGAKLTF,TGTGCTATACTTAATAATGCAGGTGCCAAGCTCACATTC,28570,15,clonotype45,clonotype45_consensus_2 +CTTCTCTCATTCCTGC-1,True,CTTCTCTCATTCCTGC-1_contig_3,True,371,TRA,TRAV17,None,TRAJ52,TRAC,True,False,CTGGSTGANTGKLTF,TGCACTGGAGGATCCACTGGAGCTAACACTGGAAAGCTCACGTTT,8744,4,clonotype45,None +CTTCTCTCATTCCTGC-1,True,CTTCTCTCATTCCTGC-1_contig_4,True,329,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,9400,6,clonotype45,None +GAACGGATCATGTGGT-1,True,GAACGGATCATGTGGT-1_contig_1,True,532,TRB,TRBV20,None,TRBJ1-1,TRBC1,True,True,CGARRQGNTEVFF,TGTGGTGCTAGGAGGCAGGGGAACACAGAAGTCTTCTTT,33068,6,clonotype46,clonotype46_consensus_1 +GAACGGATCATGTGGT-1,True,GAACGGATCATGTGGT-1_contig_2,True,559,TRA,TRAV12D-2,None,TRAJ22,TRAC,True,True,CALSVASGSWQLIF,TGTGCTCTGAGTGTGGCTTCTGGCAGCTGGCAACTCATCTTT,6424,1,clonotype46,clonotype46_consensus_2 +GAACGGATCATGTGGT-1,True,GAACGGATCATGTGGT-1_contig_3,True,363,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,29364,7,clonotype46,None +GACGTTAAGTGTTGAA-1,True,GACGTTAAGTGTTGAA-1_contig_1,True,704,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSSNENTEVFF,TGTGCCAGCAGTTCGAACGAAAACACAGAAGTCTTCTTT,2538,15,clonotype47,clonotype47_consensus_2 +GACGTTAAGTGTTGAA-1,True,GACGTTAAGTGTTGAA-1_contig_2,True,562,TRA,TRAV8D-2,None,TRAJ52,TRAC,True,True,CATDPFGGANTGKLTF,TGTGCTACAGATCCCTTCGGGGGAGCTAACACTGGAAAGCTCACGTTT,148,1,clonotype47,clonotype47_consensus_1 +GACTGCGAGGACCACA-1,True,GACTGCGAGGACCACA-1_contig_1,True,521,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSDAGQGGYEQYF,TGTGCCAGCAGTGATGCGGGACAGGGAGGATATGAACAGTACTTC,51710,9,clonotype48,clonotype48_consensus_1 +GACTGCGAGGACCACA-1,True,GACTGCGAGGACCACA-1_contig_2,True,624,TRB,TRBV15,None,TRBJ2-1,TRBC2,True,False,CQQPGKGEEAEQFF,TGCCAGCAGCCCGGTAAGGGGGAGGAAGCTGAGCAGTTCTTC,7172,3,clonotype48,None +GATCGATGTTAAGACA-1,True,GATCGATGTTAAGACA-1_contig_1,True,563,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-3,TRBC1,True,True,CASGDSGNTLYF,TGTGCCAGCGGTGATTCTGGAAATACGCTCTATTTT,2548,10,clonotype49,clonotype49_consensus_1 +GATCTAGGTTCGGCAC-1,True,GATCTAGGTTCGGCAC-1_contig_1,True,538,TRA,TRAV6-6,None,TRAJ31,TRAC,True,True,CALSANNNNRIFF,TGTGCTCTGAGTGCGAATAACAATAACAGAATCTTCTTT,538,6,clonotype50,clonotype50_consensus_1 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_1,True,526,TRA,TRAV6N-7,None,TRAJ22,TRAC,True,True,CALSDSSGSWQLIF,TGTGCTCTGAGTGACTCTTCTGGCAGCTGGCAACTCATCTTT,158,2,clonotype51,clonotype51_consensus_1 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_2,True,521,TRB,TRBV13-1,None,TRBJ2-5,TRBC2,True,True,CASSDGLGFNQDTQYF,TGTGCCAGCAGTGATGGACTGGGGTTTAACCAAGACACCCAGTACTTT,294,3,clonotype51,clonotype51_consensus_2 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_3,True,537,TRA,TRAV13-1,None,TRAJ22,TRAC,True,True,CAISGSWQLIF,TGTGCTATTTCTGGCAGCTGGCAACTCATCTTT,528,6,clonotype51,clonotype51_consensus_3 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_4,True,361,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,308,1,clonotype51,None +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_5,True,427,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,130,2,clonotype51,None +GCACATACAAGCCGTC-1,True,GCACATACAAGCCGTC-1_contig_1,True,558,TRB,TRBV3,None,TRBJ1-3,TRBC1,True,True,CARGDRHSGNTLYF,TGTGCCAGGGGGGACAGGCATTCTGGAAATACGCTCTATTTT,32094,9,clonotype52,clonotype52_consensus_1 +GCACATACAAGCCGTC-1,True,GCACATACAAGCCGTC-1_contig_2,True,368,TRB,None,None,TRBJ1-4,TRBC1,False,False,None,None,8500,2,clonotype52,None +GCACATACAAGCCGTC-1,True,GCACATACAAGCCGTC-1_contig_3,True,324,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,23742,3,clonotype52,None +GCACATACAAGCCGTC-1,True,GCACATACAAGCCGTC-1_contig_4,True,435,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,8244,1,clonotype52,None +GCACATACAAGCCGTC-1,True,GCACATACAAGCCGTC-1_contig_5,True,497,TRA,TRAV9-4,None,TRAJ50,TRAC,True,False,CAVSPLIASSSFSKLVF,TGTGCTGTGAGCCCCCTTATAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,6680,1,clonotype52,None +GCACATAGTACTCTCC-1,True,GCACATAGTACTCTCC-1_contig_1,True,557,TRA,TRAV3-3,None,TRAJ47,TRAC,True,True,CAGDYANKMIF,TGCGCGGGGGACTATGCAAACAAGATGATCTTT,1306,11,clonotype53,clonotype53_consensus_2 +GCACATAGTACTCTCC-1,True,GCACATAGTACTCTCC-1_contig_2,True,522,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGARVGVGQYF,TGTGGTGCTAGGGTTGGGGTAGGACAGTACTTC,1610,10,clonotype53,clonotype53_consensus_1 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_1,True,526,TRA,TRAV6N-7,None,TRAJ17,TRAC,True,True,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,258,8,clonotype54,clonotype54_consensus_1 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_2,True,514,TRB,TRBV14,None,TRBJ1-5,TRBC1,True,True,CASSPGTEAPLF,TGTGCCAGCAGTCCCGGGACCGAGGCTCCGCTTTTT,942,20,clonotype54,clonotype54_consensus_2 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_3,True,563,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,360,5,clonotype54,None +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_4,True,330,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,1446,13,clonotype54,None +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_5,True,348,TRA,TRAV6N-6,None,TRAJ17,TRAC,True,False,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,88,1,clonotype54,clonotype54_consensus_1 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_6,True,370,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,590,12,clonotype54,None +GCATGATGTCGCATAT-1,True,GCATGATGTCGCATAT-1_contig_1,True,630,TRA,TRAV5D-4,None,TRAJ57,TRAC,True,True,CAASDQGGSAKLIF,TGTGCTGCAAGTGATCAAGGAGGGTCTGCGAAGCTCATCTTT,678,5,clonotype55,clonotype55_consensus_1 +GCCAAATGTGTTGAGG-1,True,GCCAAATGTGTTGAGG-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-1,TRBC2,True,True,CASSQHWGGGAEQFF,TGTGCCAGCAGCCAACACTGGGGGGGCGGTGCTGAGCAGTTCTTC,14742,3,clonotype56,clonotype56_consensus_2 +GCCAAATGTGTTGAGG-1,True,GCCAAATGTGTTGAGG-1_contig_2,True,514,TRA,TRAV6-6,None,TRAJ34,TRAC,True,True,CALGDPNTDKVVF,TGTGCTCTGGGTGACCCCAATACCGACAAAGTCGTCTTT,14106,2,clonotype56,clonotype56_consensus_1 +GCCAAATGTGTTGAGG-1,True,GCCAAATGTGTTGAGG-1_contig_3,True,316,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,11662,1,clonotype56,None +GCCAAATGTGTTGAGG-1,True,GCCAAATGTGTTGAGG-1_contig_4,True,556,TRA,TRAV3-3,None,TRAJ35,TRAC,False,False,CAVSADRLCKCADIWIW,TGCGCAGTCAGTGCAGACAGGCTTTGCAAGTGCGCTGACATTTGGATCTGG,36902,5,clonotype56,None +GCGGGTTCAGGAATCG-1,True,GCGGGTTCAGGAATCG-1_contig_1,True,547,TRA,TRAV13D-3,None,TRAJ17,TRAC,True,True,CAMERPNSAGNKLTF,TGTGCTATGGAACGTCCTAACAGTGCAGGGAACAAGCTAACTTTT,46258,4,clonotype57,clonotype57_consensus_1 +GCGGGTTCAGGAATCG-1,True,GCGGGTTCAGGAATCG-1_contig_2,True,541,TRB,TRBV29,None,TRBJ1-5,TRBC1,True,True,CASSLTVNNQAPLF,TGTGCTAGCAGTTTAACAGTTAACAACCAGGCTCCGCTTTTT,16090,1,clonotype57,clonotype57_consensus_2 +GCGGGTTCAGGAATCG-1,True,GCGGGTTCAGGAATCG-1_contig_3,True,371,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,15710,1,clonotype57,None +GGAATAAGTTGTCGCG-1,True,GGAATAAGTTGTCGCG-1_contig_1,True,602,TRB,TRBV3,None,TRBJ1-2,TRBC1,True,True,CASSRDDANSDYTF,TGTGCCAGCAGCCGGGACGATGCAAACTCCGACTACACCTTC,716,11,clonotype58,clonotype58_consensus_1 +GGAATAAGTTGTCGCG-1,True,GGAATAAGTTGTCGCG-1_contig_2,True,307,TRB,TRBV17,None,TRBJ1-1,TRBC1,True,False,None,None,710,2,clonotype58,None +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_1,True,502,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQDFPEEVFF,TGTGCCAGCAGCCAAGATTTCCCAGAAGAAGTCTTCTTT,666,6,clonotype59,clonotype59_consensus_2 +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_2,True,493,TRA,TRAV6-5,None,TRAJ32,TRAC,True,True,CALSHYGGSGNKLIF,TGTGCTCTGAGTCATTATGGGGGCAGTGGCAACAAGCTCATCTTT,338,3,clonotype59,clonotype59_consensus_1 +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_3,True,339,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,322,1,clonotype59,None +GGCCGATTCTAACTGG-1,True,GGCCGATTCTAACTGG-1_contig_1,True,725,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CAGTNSAGNKLTF,TGTGCTGGGACTAACAGTGCAGGGAACAAGCTAACTTTT,43940,5,clonotype60,clonotype60_consensus_1 +GGCCGATTCTAACTGG-1,True,GGCCGATTCTAACTGG-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,34672,3,clonotype60,clonotype60_consensus_2 +GGCTGGTTCAAAGACA-1,True,GGCTGGTTCAAAGACA-1_contig_1,True,569,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-4,TRBC2,True,True,CASGQTGGNTLYF,TGTGCCAGCGGTCAGACAGGGGGCAACACCTTGTACTTT,63604,4,clonotype61,clonotype61_consensus_1 +GGGCATCCAATAAGCA-1,True,GGGCATCCAATAAGCA-1_contig_1,True,540,TRB,TRBV20,None,TRBJ1-4,TRBC1,True,True,CGAPRTGGDERLFF,TGTGGTGCCCCCCGGACAGGGGGCGACGAAAGATTATTTTTC,492,4,clonotype62,clonotype62_consensus_1 +GGGCATCCAATAAGCA-1,True,GGGCATCCAATAAGCA-1_contig_2,True,511,TRA,TRAV4-2,None,TRAJ39,TRAC,True,True,CAAFNAGAKLTF,TGTGCTGCCTTTAATGCAGGTGCCAAGCTCACATTC,552,6,clonotype62,clonotype62_consensus_2 +GGGCATCCAATAAGCA-1,True,GGGCATCCAATAAGCA-1_contig_3,True,342,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,646,6,clonotype62,None +GGTGAAGAGTGGGTTG-1,True,GGTGAAGAGTGGGTTG-1_contig_1,True,558,TRB,TRBV13-3,None,TRBJ1-6,TRBC1,True,True,CAGQGARNSPLYF,TGTGCCGGACAGGGGGCGCGAAATTCGCCCCTCTACTTT,27264,6,clonotype63,clonotype63_consensus_1 +GGTGAAGAGTGGGTTG-1,True,GGTGAAGAGTGGGTTG-1_contig_2,True,420,TRB,TRBV31,None,TRBJ1-5,TRBC1,True,False,CLESSDREQAPLF,TGCCTGGAGTCTAGCGACAGGGAACAGGCTCCGCTTTTT,8684,1,clonotype63,None +GGTGAAGAGTGGGTTG-1,True,GGTGAAGAGTGGGTTG-1_contig_3,True,352,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,42352,5,clonotype63,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_1,True,710,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSIDRVGSERLFF,TGTGCCAGCAGTATAGACAGGGTAGGATCCGAAAGATTATTTTTC,1544,16,clonotype64,clonotype64_consensus_1 +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_2,True,567,TRA,TRAV2,None,TRAJ30,TRAC,True,True,CIVTDLTNAYKVIF,TGCATTGTGACTGACCTCACAAATGCTTACAAAGTCATCTTT,1038,12,clonotype64,clonotype64_consensus_2 +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_3,True,308,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,414,2,clonotype64,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_4,True,345,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,530,2,clonotype64,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_5,True,354,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,2548,8,clonotype64,None +GTACTTTCACATGTGT-1,True,GTACTTTCACATGTGT-1_contig_1,True,576,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-4,TRBC2,True,True,CASGDSHASQNTLYF,TGTGCCAGCGGTGATAGCCACGCTAGTCAAAACACCTTGTACTTT,45384,3,clonotype65,clonotype65_consensus_2 +GTACTTTCACATGTGT-1,True,GTACTTTCACATGTGT-1_contig_2,True,558,TRA,TRAV8D-2,None,TRAJ52,TRAC,True,True,CATATGANTGKLTF,TGTGCTACAGCCACTGGAGCTAACACTGGAAAGCTCACGTTT,31030,4,clonotype65,clonotype65_consensus_1 +GTCCTCAGTTTACTCT-1,True,GTCCTCAGTTTACTCT-1_contig_1,True,519,TRB,TRBV5,TRBD1,TRBJ2-7,TRBC2,True,True,CASSHRDRGLEQYF,TGTGCCAGCAGCCACCGGGACAGGGGGCTTGAACAGTACTTC,6544,3,clonotype66,clonotype66_consensus_2 +GTCCTCAGTTTACTCT-1,True,GTCCTCAGTTTACTCT-1_contig_2,True,574,TRA,TRAV4-4-DV10,None,TRAJ50,TRAC,True,True,CAAEAASSSFSKLVF,TGTGCTGCTGAGGCCGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,27224,12,clonotype66,clonotype66_consensus_1 +GTCCTCAGTTTACTCT-1,True,GTCCTCAGTTTACTCT-1_contig_3,True,426,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,44842,14,clonotype66,None +GTCTCGTGTAATCACC-1,True,GTCTCGTGTAATCACC-1_contig_1,True,565,TRB,TRBV1,None,TRBJ1-2,TRBC1,True,True,CTCSAQANSDYTF,TGCACCTGCAGTGCCCAGGCAAACTCCGACTACACCTTC,65594,23,clonotype67,clonotype67_consensus_2 +GTCTCGTGTAATCACC-1,True,GTCTCGTGTAATCACC-1_contig_2,True,524,TRA,TRAV6-4,None,TRAJ15,TRAC,True,True,CALVDVQGGRALIF,TGTGCTCTGGTTGACGTCCAGGGAGGCAGAGCTCTGATATTT,10066,7,clonotype67,clonotype67_consensus_1 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_1,True,512,TRA,TRAV6-5,None,TRAJ5,TRAC,True,True,CALGDTQVVGQLTF,TGTGCTCTGGGTGACACACAGGTTGTGGGGCAGCTCACTTTC,1090,10,clonotype68,clonotype68_consensus_2 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_2,True,513,TRB,TRBV31,None,TRBJ1-3,TRBC1,True,True,CAWRGGGGNTHYF,TGTGCCTGGCGGGGGGGGGGAGGAAATACGCACTATTTT,1620,12,clonotype68,clonotype68_consensus_1 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_3,True,373,TRB,None,None,TRBJ1-1,TRBC1,False,False,None,None,7472,29,clonotype68,None +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_4,True,501,TRA,TRAV12-1,None,TRAJ11,TRAC,True,False,CPVLLCSNSGYNKLTF,TGCCCTGTACTACTGTGCTCTAACTCGGGATACAACAAACTCACTTTT,302,2,clonotype68,None +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_1,True,535,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSAGTGGERLFF,TGTGCCAGCAGTGCCGGGACGGGCGGCGAAAGATTATTTTTC,1346,11,clonotype69,clonotype69_consensus_2 +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_2,True,588,TRA,TRAV7-4,None,TRAJ9,TRAC,True,True,CAARGRGYKLTF,TGTGCAGCTAGGGGGAGGGGCTACAAACTTACCTTC,348,3,clonotype69,clonotype69_consensus_1 +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_3,True,531,TRA,TRAV6-2,None,TRAJ40,None,True,False,CVLGDRYRKLQIRLWSRYQTEGYST,TGTGTTCTGGGTGATAGGTACAGGAAACTACAAATACGTCTTTGGAGCAGGTACCAGACTGAAGGTTATAGCACC,56,1,clonotype69,None +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_4,True,322,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,922,3,clonotype69,None +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_5,True,331,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,990,6,clonotype69,None +TACCTTATCCGCAAGC-1,True,TACCTTATCCGCAAGC-1_contig_1,True,562,TRA,TRAV14D-2,None,TRAJ43,TRAC,True,True,CAALNNNNAPRF,TGTGCAGCACTCAATAACAACAATGCCCCACGATTT,67926,6,clonotype70,clonotype70_consensus_2 +TACCTTATCCGCAAGC-1,True,TACCTTATCCGCAAGC-1_contig_2,True,561,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGDVRYEQYF,TGTGCCAGCGGTGATGTCAGATATGAACAGTACTTC,1286,3,clonotype70,clonotype70_consensus_1 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_1,True,636,TRA,TRAV7-1,None,TRAJ40,TRAC,True,True,CAVSMGTGNYKYVF,TGTGCAGTGAGCATGGGTACAGGAAACTACAAATACGTCTTT,8320,3,clonotype71,clonotype71_consensus_1 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_2,True,543,TRA,TRAV15-1-DV6-1,None,TRAJ33,TRAC,True,True,CALWEPYMDSNYQLIW,TGTGCTCTCTGGGAGCCCTACATGGATAGCAACTATCAGTTGATCTGG,8020,2,clonotype71,clonotype71_consensus_2 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_3,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,20658,6,clonotype71,clonotype71_consensus_3 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_4,True,602,TRA,TRAV14D-2,None,TRAJ33,TRAC,True,False,CALWEPYMDSNYQLIW,TGTGCTCTCTGGGAGCCCTACATGGATAGCAACTATCAGTTGATCTGG,10034,3,clonotype71,clonotype71_consensus_2 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_5,True,311,TRA,None,None,TRAJ34,TRAC,False,False,None,None,13840,4,clonotype71,None +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_6,True,313,TRA,None,None,TRAJ11,TRAC,False,False,None,None,7066,1,clonotype71,None +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_7,True,324,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,7212,1,clonotype71,None +TATCTCACAGTCAGAG-1,True,TATCTCACAGTCAGAG-1_contig_1,True,516,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGYEQYF,TGTGCCAGCAGCCCGGGACTGGGGTATGAACAGTACTTC,50414,3,clonotype72,clonotype72_consensus_1 +TATCTCACAGTCAGAG-1,True,TATCTCACAGTCAGAG-1_contig_2,True,498,TRA,TRAV21-DV12,None,TRAJ40,TRAC,True,True,CILVTGNYKYVF,TGTATCCTTGTTACAGGAAACTACAAATACGTCTTT,28120,3,clonotype72,clonotype72_consensus_2 +TATCTCACATATACGC-1,True,TATCTCACATATACGC-1_contig_1,True,592,TRA,TRAV6N-7,None,TRAJ47,TRAC,True,True,CALGEDYANKMIF,TGTGCTCTGGGTGAGGACTATGCAAACAAGATGATCTTT,13362,3,clonotype73,clonotype73_consensus_3 +TATCTCACATATACGC-1,True,TATCTCACATATACGC-1_contig_2,True,566,TRA,TRAV3-3,None,TRAJ50,TRAC,True,True,CAVSSSSSFSKLVF,TGCGCAGTCAGTTCATCCTCCTCCTTCAGCAAGCTGGTGTTT,13810,4,clonotype73,clonotype73_consensus_2 +TATCTCACATATACGC-1,True,TATCTCACATATACGC-1_contig_3,True,562,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGDRAETLYF,TGTGCCAGCGGTGACCGTGCAGAAACGCTGTATTTT,39610,11,clonotype73,clonotype73_consensus_1 +TATCTCACATATACGC-1,True,TATCTCACATATACGC-1_contig_4,True,1093,TRB,TRBV12-2,None,TRBJ2-3,TRBC2,True,False,None,None,8204,3,clonotype73,None +TATCTCACATATACGC-1,True,TATCTCACATATACGC-1_contig_5,True,690,TRB,TRBV3,None,TRBJ2-7,TRBC2,True,False,None,None,2282,1,clonotype73,None +TCAGATGTCAGAGACG-1,True,TCAGATGTCAGAGACG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,2712,37,clonotype74,clonotype74_consensus_1 +TCAGCAACAAGGTTCT-1,True,TCAGCAACAAGGTTCT-1_contig_1,True,567,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGGGTGEAETLYF,TGTGCCAGCGGTGGTGGGACAGGGGAGGCAGAAACGCTGTATTTT,638,4,clonotype75,clonotype75_consensus_2 +TCAGCAACAAGGTTCT-1,True,TCAGCAACAAGGTTCT-1_contig_2,True,533,TRA,TRAV6-2,None,TRAJ11,TRAC,True,True,CVLGDSGYNKLTF,TGTGTTCTGGGTGACTCGGGATACAACAAACTCACTTTT,1190,7,clonotype75,clonotype75_consensus_1 +TCGTAGATCACGCGGT-1,True,TCGTAGATCACGCGGT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCCGGACAGGGGAACACAGAAGTCTTCTTT,58708,12,clonotype76,clonotype76_consensus_1 +TCGTAGATCACGCGGT-1,True,TCGTAGATCACGCGGT-1_contig_2,True,694,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CAVSASSGQKLVF,TGTGCTGTGAGCGCTTCAAGTGGCCAGAAGCTGGTTTTT,8676,3,clonotype76,clonotype76_consensus_2 +TCGTAGATCACGCGGT-1,True,TCGTAGATCACGCGGT-1_contig_3,True,541,TRA,TRAV6N-7,None,TRAJ34,TRAC,True,False,CTTVLFNTDKVVF,TGTACTACTGTGCTCTTCAATACCGACAAAGTCGTCTTT,4970,1,clonotype76,None +TGACTAGTCGAGAACG-1,True,TGACTAGTCGAGAACG-1_contig_1,True,571,TRB,TRBV1,None,TRBJ2-3,TRBC2,True,True,CTCSADLVSAETLYF,TGCACCTGCAGTGCAGATCTAGTTAGTGCAGAAACGCTGTATTTT,69154,21,clonotype77,clonotype77_consensus_1 +TGACTAGTCGAGAACG-1,True,TGACTAGTCGAGAACG-1_contig_2,True,550,TRA,TRAV10D,None,TRAJ45,TRAC,True,True,CAAGAGGADRLTF,TGTGCAGCTGGGGCAGGAGGTGCAGATAGACTCACCTTT,7960,3,clonotype77,clonotype77_consensus_2 +TGAGCCGCAGTAAGCG-1,True,TGAGCCGCAGTAAGCG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,15432,2,clonotype78,clonotype78_consensus_1 +TGAGCCGCAGTAAGCG-1,True,TGAGCCGCAGTAAGCG-1_contig_2,True,687,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,48952,5,clonotype78,None +TGAGCCGCAGTAAGCG-1,True,TGAGCCGCAGTAAGCG-1_contig_3,True,491,TRA,TRAV12D-2,None,TRAJ17,TRAC,True,False,None,None,14122,2,clonotype78,None +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_1,True,521,TRA,TRAV14-1,None,TRAJ5,TRAC,True,True,CAAGTQVVGQLTF,TGTGCAGCCGGGACACAGGTTGTGGGGCAGCTCACTTTC,388,3,clonotype79,clonotype79_consensus_1 +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_2,True,469,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,180,1,clonotype79,None +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_3,True,426,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,420,3,clonotype79,None +TGTCCCAGTAAGTAGT-1,True,TGTCCCAGTAAGTAGT-1_contig_1,True,721,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,22540,7,clonotype80,clonotype80_consensus_1 +TGTCCCAGTAAGTAGT-1,True,TGTCCCAGTAAGTAGT-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,21012,9,clonotype80,clonotype80_consensus_2 +TGTCCCAGTAAGTAGT-1,True,TGTCCCAGTAAGTAGT-1_contig_3,True,320,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,7892,1,clonotype80,None +TGTCCCAGTAAGTAGT-1,True,TGTCCCAGTAAGTAGT-1_contig_4,True,607,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,24748,5,clonotype80,None +TTCGGTCCATCGGTTA-1,True,TTCGGTCCATCGGTTA-1_contig_1,True,566,TRA,TRAV3-3,None,TRAJ30,TRAC,True,True,CAVSAPTNAYKVIF,TGCGCAGTCAGTGCCCCGACAAATGCTTACAAAGTCATCTTT,37558,6,clonotype81,clonotype81_consensus_1 +TTCGGTCCATCGGTTA-1,True,TTCGGTCCATCGGTTA-1_contig_2,True,545,TRA,TRAV8D-1,None,TRAJ17,TRAC,True,False,None,None,28874,5,clonotype81,None +TTCGGTCCATCGGTTA-1,True,TTCGGTCCATCGGTTA-1_contig_3,True,617,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,False,CASSQGKTANTEVFF,TGTGCCAGCAGCCAAGGGAAAACTGCAAACACAGAAGTCTTCTTT,8300,1,clonotype81,None +TTTATGCAGATACACA-1,True,TTTATGCAGATACACA-1_contig_1,True,597,TRA,TRAV7D-4,None,TRAJ48,TRAC,True,True,CAASRENYGNEKITF,TGTGCAGCTAGTAGGGAGAACTATGGAAATGAGAAAATAACTTTT,10008,19,clonotype82,clonotype82_consensus_1 +TTTATGCAGATACACA-1,True,TTTATGCAGATACACA-1_contig_2,True,357,TRB,TRBV13-2,None,TRBJ2-1,TRBC2,True,False,CASGGWGNYAEQFF,TGTGCCAGCGGTGGCTGGGGTAACTATGCTGAGCAGTTCTTC,57224,4,clonotype82,None +TTTATGCAGCTATGCT-1,True,TTTATGCAGCTATGCT-1_contig_1,True,518,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSEGGRSYEQYF,TGTGCCAGCAGTGAGGGGGGGCGCTCCTATGAACAGTACTTC,42094,5,clonotype83,clonotype83_consensus_1 +TTTATGCAGCTATGCT-1,True,TTTATGCAGCTATGCT-1_contig_2,True,532,TRA,TRAV6N-7,None,TRAJ53,TRAC,True,True,CALSDFGGSNYKLTF,TGTGCTCTGAGTGATTTTGGAGGCAGCAATTACAAACTGACATTT,33472,3,clonotype83,clonotype83_consensus_2 diff --git a/tests/testthat/fixtures/Chariou/h5files/SCAF1714_2_1_filtered_contig_annotations.csv b/tests/testthat/fixtures/Chariou/h5files/SCAF1714_2_1_filtered_contig_annotations.csv new file mode 100644 index 0000000..243f6cb --- /dev/null +++ b/tests/testthat/fixtures/Chariou/h5files/SCAF1714_2_1_filtered_contig_annotations.csv @@ -0,0 +1,329 @@ +barcode,is_cell,contig_id,high_confidence,length,chain,v_gene,d_gene,j_gene,c_gene,full_length,productive,cdr3,cdr3_nt,reads,umis,raw_clonotype_id,raw_consensus_id +AAATGCCCACGGACAA-1,True,AAATGCCCACGGACAA-1_contig_1,True,623,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSANERLFF,TGTGCCAGCAGTGCCAACGAAAGATTATTTTTC,36008,9,clonotype12,clonotype12_consensus_2 +AAATGCCCACGGACAA-1,True,AAATGCCCACGGACAA-1_contig_2,True,504,TRA,TRAV12D-2,None,TRAJ49,TRAC,True,True,CALSAPNTGYQNFYF,TGTGCTCTGAGTGCCCCTAACACGGGTTACCAGAACTTCTATTTT,21046,5,clonotype12,clonotype12_consensus_1 +AAATGCCCACGGACAA-1,True,AAATGCCCACGGACAA-1_contig_3,True,598,TRB,TRBV3,None,TRBJ2-5,TRBC2,True,False,CQQLAVQDTQYF,TGCCAGCAGCTGGCAGTCCAAGACACCCAGTACTTT,5576,2,clonotype12,None +AAATGCCCACGGACAA-1,True,AAATGCCCACGGACAA-1_contig_4,True,336,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,14804,4,clonotype12,None +AACACGTGTCTAAAGA-1,True,AACACGTGTCTAAAGA-1_contig_1,True,628,TRA,TRAV6N-7,None,TRAJ49,TRAC,True,True,CALGGKKGYQNFYF,TGTGCTCTGGGTGGTAAGAAGGGTTACCAGAACTTCTATTTT,29884,3,clonotype6,clonotype6_consensus_2 +AACACGTGTCTAAAGA-1,True,AACACGTGTCTAAAGA-1_contig_2,True,665,TRB,TRBV19,None,TRBJ2-7,TRBC2,True,True,CASSINWGGEQYF,TGTGCCAGCAGTATAAACTGGGGGGGCGAACAGTACTTC,45260,5,clonotype6,clonotype6_consensus_1 +AACCATGAGACTAAGT-1,True,AACCATGAGACTAAGT-1_contig_1,True,554,TRB,TRBV31,None,TRBJ2-2,TRBC2,True,True,CAWSQKRLGVDTGQLYF,TGTGCCTGGAGTCAAAAAAGACTGGGGGTAGACACCGGGCAGCTCTACTTT,76438,10,clonotype13,clonotype13_consensus_1 +AACCATGCACCGATAT-1,True,AACCATGCACCGATAT-1_contig_1,True,546,TRA,TRAV7-3,None,TRAJ26,TRAC,True,True,CAVSMGYAQGLTF,TGTGCAGTGAGCATGGGCTATGCCCAGGGATTAACCTTC,21636,2,clonotype14,clonotype14_consensus_1 +AACCATGCACCGATAT-1,True,AACCATGCACCGATAT-1_contig_2,True,537,TRA,TRAV15-1-DV6-1,None,TRAJ40,TRAC,True,True,CALWESTGNYKYVF,TGTGCTCTCTGGGAGTCTACAGGAAACTACAAATACGTCTTT,40080,3,clonotype14,clonotype14_consensus_2 +AACCATGCACCGATAT-1,True,AACCATGCACCGATAT-1_contig_3,True,588,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGARQGLGEQYF,TGTGGTGCTAGGCAGGGACTGGGGGAACAGTACTTC,15660,1,clonotype14,clonotype14_consensus_3 +AACCATGCATGTTCCC-1,True,AACCATGCATGTTCCC-1_contig_1,True,659,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,25784,4,clonotype1,clonotype1_consensus_2 +AACCATGCATGTTCCC-1,True,AACCATGCATGTTCCC-1_contig_2,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,47080,5,clonotype1,clonotype1_consensus_1 +AACTGGTGTGCCTGCA-1,True,AACTGGTGTGCCTGCA-1_contig_1,True,550,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,78692,3,clonotype3,clonotype3_consensus_1 +AAGTCTGTCGGAATCT-1,True,AAGTCTGTCGGAATCT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSQGGSSYEQYF,TGTGCCAGCAGCCAGGGGGGAAGCTCCTATGAACAGTACTTC,21974,7,clonotype15,clonotype15_consensus_2 +AAGTCTGTCGGAATCT-1,True,AAGTCTGTCGGAATCT-1_contig_2,True,701,TRB,TRBV19,None,TRBJ1-6,TRBC1,True,True,CASSKDTSYNSPLYF,TGTGCCAGCAGTAAGGACACTTCCTATAATTCGCCCCTCTACTTT,27132,10,clonotype15,clonotype15_consensus_3 +AAGTCTGTCGGAATCT-1,True,AAGTCTGTCGGAATCT-1_contig_3,True,523,TRA,TRAV8D-1,None,TRAJ28,TRAC,True,True,CATGTGSNRLTF,TGTGCTACAGGCACTGGGAGTAACAGGCTCACTTTT,22778,7,clonotype15,clonotype15_consensus_1 +AAGTCTGTCGGAATCT-1,True,AAGTCTGTCGGAATCT-1_contig_4,True,335,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,7062,3,clonotype15,None +ACACCAAAGCTTATCG-1,True,ACACCAAAGCTTATCG-1_contig_1,True,510,TRB,TRBV29,None,TRBJ1-2,TRBC1,True,True,CASVGTTNSDYTF,TGTGCTAGCGTCGGGACAACAAACTCCGACTACACCTTC,36564,10,clonotype16,clonotype16_consensus_2 +ACACCAAAGCTTATCG-1,True,ACACCAAAGCTTATCG-1_contig_2,True,530,TRA,TRAV6N-7,None,TRAJ39,TRAC,True,True,CALRSNNAGAKLTF,TGTGCTCTGAGGTCGAATAATGCAGGTGCCAAGCTCACATTC,8868,3,clonotype16,clonotype16_consensus_1 +ACACCAAAGCTTATCG-1,True,ACACCAAAGCTTATCG-1_contig_3,True,357,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,30974,7,clonotype16,None +ACACCGGTCAGTCAGT-1,True,ACACCGGTCAGTCAGT-1_contig_1,True,529,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQGGGNTEVFF,TGTGCCAGCAGCCAAGGGGGGGGGAACACAGAAGTCTTCTTT,68520,6,clonotype7,clonotype7_consensus_1 +ACACCGGTCAGTCAGT-1,True,ACACCGGTCAGTCAGT-1_contig_2,True,701,TRA,TRAV9D-2,None,TRAJ12,TRAC,True,False,None,None,7128,1,clonotype7,None +ACACTGACATCACGTA-1,True,ACACTGACATCACGTA-1_contig_1,True,590,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-1,TRBC1,True,True,CASGGGQSNTEVFF,TGTGCCAGCGGTGGCGGACAGTCAAACACAGAAGTCTTCTTT,20722,3,clonotype17,clonotype17_consensus_1 +ACACTGACATCACGTA-1,True,ACACTGACATCACGTA-1_contig_2,True,610,TRA,TRAV16N,None,TRAJ37,TRAC,True,True,CAGAGNTRKLIF,TGTGCGGGGGCAGGCAATACTAGAAAACTCATCTTT,12998,1,clonotype17,clonotype17_consensus_2 +ACACTGACATCACGTA-1,True,ACACTGACATCACGTA-1_contig_3,True,331,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,14382,1,clonotype17,None +ACACTGACATCACGTA-1,True,ACACTGACATCACGTA-1_contig_4,True,516,TRA,TRAV13-2,None,TRAJ23,TRAC,True,False,None,None,29454,2,clonotype17,None +ACAGCCGCAGACAGGT-1,True,ACAGCCGCAGACAGGT-1_contig_1,True,563,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,65814,9,clonotype3,clonotype3_consensus_1 +ACGAGGAGTGCTCTTC-1,True,ACGAGGAGTGCTCTTC-1_contig_1,True,668,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTTTGACTAACAGTGCAGGGAACAAGCTAACTTTT,6294,1,clonotype18,clonotype18_consensus_1 +ACGAGGAGTGCTCTTC-1,True,ACGAGGAGTGCTCTTC-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSAGTGNTEVFF,TGTGCCAGCAGCGCCGGGACAGGGAACACAGAAGTCTTCTTT,50176,7,clonotype18,clonotype18_consensus_2 +ACGAGGAGTGCTCTTC-1,True,ACGAGGAGTGCTCTTC-1_contig_3,True,620,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,19384,3,clonotype18,None +ACGATGTAGAGTCTGG-1,True,ACGATGTAGAGTCTGG-1_contig_1,True,520,TRA,TRAV8D-1,None,TRAJ33,TRAC,True,True,CATRRNYQLIW,TGTGCTACTAGGCGCAACTATCAGTTGATCTGG,12340,1,clonotype2,clonotype2_consensus_1 +ACGATGTAGAGTCTGG-1,True,ACGATGTAGAGTCTGG-1_contig_2,True,572,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,17644,2,clonotype2,clonotype2_consensus_2 +ACGATGTAGAGTCTGG-1,True,ACGATGTAGAGTCTGG-1_contig_3,True,374,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,49202,4,clonotype2,None +ACGATGTTCAGCAACT-1,True,ACGATGTTCAGCAACT-1_contig_1,True,558,TRB,TRBV20,None,TRBJ1-1,TRBC1,True,True,CGARGENTEVFF,TGTGGTGCTAGAGGGGAAAACACAGAAGTCTTCTTT,54460,12,clonotype19,clonotype19_consensus_2 +ACGATGTTCAGCAACT-1,True,ACGATGTTCAGCAACT-1_contig_2,True,575,TRA,TRAV7D-2,None,TRAJ39,TRAC,True,True,CAASMGHNAGAKLTF,TGTGCAGCAAGCATGGGTCATAATGCAGGTGCCAAGCTCACATTC,15370,4,clonotype19,clonotype19_consensus_1 +ACGATGTTCAGCAACT-1,True,ACGATGTTCAGCAACT-1_contig_3,True,443,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,5918,2,clonotype19,None +ACGGCCAAGCCTCGTG-1,True,ACGGCCAAGCCTCGTG-1_contig_1,True,591,TRA,TRAV7D-4,None,TRAJ30,TRAC,True,True,CAADDTNAYKVIF,TGTGCAGCTGATGACACAAATGCTTACAAAGTCATCTTT,17380,6,clonotype20,clonotype20_consensus_1 +ACGGCCAAGCCTCGTG-1,True,ACGGCCAAGCCTCGTG-1_contig_2,True,368,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,36760,2,clonotype20,None +ACGGCCAAGCCTCGTG-1,True,ACGGCCAAGCCTCGTG-1_contig_3,True,516,TRB,TRBV26,None,TRBJ1-2,TRBC1,True,False,CQQPGQGGSDYTF,TGCCAGCAGCCGGGACAGGGGGGATCCGACTACACCTTC,24086,4,clonotype20,None +ACGGGCTAGTGTTGAA-1,True,ACGGGCTAGTGTTGAA-1_contig_1,True,694,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASSSDWGLSQNTLYF,TGTGCCAGCAGTAGCGACTGGGGCCTGAGTCAAAACACCTTGTACTTT,38194,3,clonotype21,clonotype21_consensus_2 +ACGGGCTAGTGTTGAA-1,True,ACGGGCTAGTGTTGAA-1_contig_2,True,456,TRA,TRAV16N,None,TRAJ45,None,True,True,CAMRETGGADRLTF,TGTGCTATGAGAGAGACAGGAGGTGCAGATAGACTCACCTTT,10180,1,clonotype21,clonotype21_consensus_1 +ACGGGCTAGTGTTGAA-1,True,ACGGGCTAGTGTTGAA-1_contig_3,True,475,TRA,TRAV12D-2,None,TRAJ42,TRAC,True,False,None,None,28160,2,clonotype21,None +ACTATCTAGAAAGTGG-1,True,ACTATCTAGAAAGTGG-1_contig_1,True,605,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,10062,5,clonotype1,clonotype1_consensus_2 +ACTATCTAGAAAGTGG-1,True,ACTATCTAGAAAGTGG-1_contig_2,True,529,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,17200,8,clonotype1,clonotype1_consensus_1 +ACTATCTAGAAAGTGG-1,True,ACTATCTAGAAAGTGG-1_contig_3,True,375,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,49448,9,clonotype1,None +AGATTGCAGAGAACAG-1,True,AGATTGCAGAGAACAG-1_contig_1,True,552,TRA,TRAV3-3,None,TRAJ15,TRAC,True,True,CAVSYQGGRALIF,TGCGCAGTCAGCTACCAGGGAGGCAGAGCTCTGATATTT,23090,9,clonotype22,clonotype22_consensus_1 +AGATTGCAGAGAACAG-1,True,AGATTGCAGAGAACAG-1_contig_2,True,574,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGAGQGSAETLYF,TGTGCCAGCGGGGCGGGACAGGGGAGTGCAGAAACGCTGTATTTT,33118,11,clonotype22,clonotype22_consensus_3 +AGATTGCAGAGAACAG-1,True,AGATTGCAGAGAACAG-1_contig_3,True,528,TRA,TRAV6-2,None,TRAJ11,TRAC,True,True,CVLGDSGYNKLTF,TGTGTTCTGGGTGACTCGGGATACAACAAACTCACTTTT,8526,4,clonotype22,clonotype22_consensus_2 +AGATTGCAGAGAACAG-1,True,AGATTGCAGAGAACAG-1_contig_4,True,347,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,13902,3,clonotype22,None +AGCCTAAGTGACCAAG-1,True,AGCCTAAGTGACCAAG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ2-2,TRBC2,True,True,CASSQELNTGQLYF,TGTGCCAGCAGCCAAGAACTGAACACCGGGCAGCTCTACTTT,25916,3,clonotype23,clonotype23_consensus_2 +AGCCTAAGTGACCAAG-1,True,AGCCTAAGTGACCAAG-1_contig_2,True,591,TRA,TRAV13-1,None,TRAJ40,TRAC,True,True,CAMERGGNYKYVF,TGTGCTATGGAACGGGGAGGAAACTACAAATACGTCTTT,42470,5,clonotype23,clonotype23_consensus_1 +AGCCTAAGTGACCAAG-1,True,AGCCTAAGTGACCAAG-1_contig_3,True,562,TRA,TRAV12-1,None,TRAJ17,TRAC,True,True,CALRALSAGNKLTF,TGTGCTCTGAGGGCTCTCAGTGCAGGGAACAAGCTAACTTTT,10760,2,clonotype23,clonotype23_consensus_3 +AGGCCGTTCGCTTAGA-1,True,AGGCCGTTCGCTTAGA-1_contig_1,True,562,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSAETYEQYF,TGCACCTGCAGTGCAGAGACATATGAACAGTACTTC,33608,5,clonotype24,clonotype24_consensus_1 +AGGCCGTTCGCTTAGA-1,True,AGGCCGTTCGCTTAGA-1_contig_2,True,570,TRA,TRAV4-4-DV10,None,TRAJ49,TRAC,True,True,CAAEGYQNFYF,TGTGCTGCTGAGGGTTACCAGAACTTCTATTTT,26274,5,clonotype24,clonotype24_consensus_2 +AGGCCGTTCGCTTAGA-1,True,AGGCCGTTCGCTTAGA-1_contig_3,True,337,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,14844,5,clonotype24,None +AGGTCATAGAAGGACA-1,True,AGGTCATAGAAGGACA-1_contig_1,True,521,TRA,TRAV6D-4,None,TRAJ21,TRAC,True,True,CALVKPNYNVLYF,TGTGCTCTGGTTAAGCCTAATTACAACGTGCTTTACTTC,26278,7,clonotype25,clonotype25_consensus_2 +AGGTCATAGAAGGACA-1,True,AGGTCATAGAAGGACA-1_contig_2,True,699,TRB,TRBV19,None,TRBJ1-3,TRBC1,True,True,CASSMTAFSGNTLYF,TGTGCCAGCAGTATGACAGCTTTTTCTGGAAATACGCTCTATTTT,48046,11,clonotype25,clonotype25_consensus_1 +AGGTCATAGCTTATCG-1,True,AGGTCATAGCTTATCG-1_contig_1,True,718,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSTTGYNTEVFF,TGTGCCAGCAGTACTACAGGGTACAACACAGAAGTCTTCTTT,18914,2,clonotype26,clonotype26_consensus_1 +AGGTCATAGCTTATCG-1,True,AGGTCATAGCTTATCG-1_contig_2,True,335,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,54420,4,clonotype26,None +AGTCTTTGTGTAAGTA-1,True,AGTCTTTGTGTAAGTA-1_contig_1,True,536,TRA,TRAV6-2,None,TRAJ33,TRAC,True,True,CVLGDSNYQLIW,TGTGTTCTGGGGGATAGCAACTATCAGTTGATCTGG,61020,5,clonotype27,clonotype27_consensus_1 +AGTCTTTGTGTAAGTA-1,True,AGTCTTTGTGTAAGTA-1_contig_2,True,417,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,14288,3,clonotype27,None +ATCATGGCAATGCCAT-1,True,ATCATGGCAATGCCAT-1_contig_1,True,567,TRA,TRAV2,None,TRAJ43,TRAC,True,True,CIVTDRNNNNAPRF,TGCATTGTGACTGACAGGAATAACAACAATGCCCCACGATTT,40630,3,clonotype28,clonotype28_consensus_2 +ATCATGGCAATGCCAT-1,True,ATCATGGCAATGCCAT-1_contig_2,True,519,TRB,TRBV17,None,TRBJ2-7,TRBC2,True,True,CASSRGRGEQYF,TGTGCTAGCAGTAGAGGGCGGGGGGAACAGTACTTC,37806,3,clonotype28,clonotype28_consensus_1 +ATCATGGCATGTCTCC-1,True,ATCATGGCATGTCTCC-1_contig_1,True,552,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,35824,10,clonotype3,clonotype3_consensus_1 +ATCATGGCATGTCTCC-1,True,ATCATGGCATGTCTCC-1_contig_2,True,368,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,21608,5,clonotype3,None +ATCATGGCATGTCTCC-1,True,ATCATGGCATGTCTCC-1_contig_3,True,352,TRB,TRBV19,None,TRBJ1-6,TRBC1,True,False,None,None,11674,3,clonotype3,None +ATCATGGGTCCCTACT-1,True,ATCATGGGTCCCTACT-1_contig_1,True,724,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASSIWGGLSQNTLYF,TGTGCCAGCAGTATTTGGGGGGGCTTGAGTCAAAACACCTTGTACTTT,43558,5,clonotype29,clonotype29_consensus_1 +ATCATGGGTCCCTACT-1,True,ATCATGGGTCCCTACT-1_contig_2,True,558,TRA,TRAV16N,None,TRAJ56,TRAC,True,True,CAALLATGGNNKLTF,TGTGCTGCCCTTTTGGCTACTGGAGGCAATAATAAGCTGACTTTT,34388,5,clonotype29,clonotype29_consensus_2 +ATCCACCGTACAGCAG-1,True,ATCCACCGTACAGCAG-1_contig_1,True,556,TRA,TRAV8D-2,None,TRAJ49,TRAC,True,True,CATDNTGYQNFYF,TGTGCTACAGACAACACGGGTTACCAGAACTTCTATTTT,9352,1,clonotype30,clonotype30_consensus_2 +ATCCACCGTACAGCAG-1,True,ATCCACCGTACAGCAG-1_contig_2,True,628,TRA,TRAV17,None,TRAJ50,TRAC,True,True,CALDMGASSSFSKLVF,TGTGCACTGGACATGGGGGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,10728,4,clonotype30,clonotype30_consensus_1 +ATCCACCGTACAGCAG-1,True,ATCCACCGTACAGCAG-1_contig_3,True,521,TRB,TRBV13-1,None,TRBJ2-1,TRBC2,True,True,CASSDRWGRWAEQFF,TGTGCCAGCAGTGATCGCTGGGGGAGGTGGGCTGAGCAGTTCTTC,25262,2,clonotype30,clonotype30_consensus_3 +ATCCACCGTACAGCAG-1,True,ATCCACCGTACAGCAG-1_contig_4,True,448,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,32064,2,clonotype30,None +ATGGGAGGTCTCTCTG-1,True,ATGGGAGGTCTCTCTG-1_contig_1,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,33094,2,clonotype1,clonotype1_consensus_1 +ATGGGAGGTCTCTCTG-1,True,ATGGGAGGTCTCTCTG-1_contig_2,True,644,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,30250,3,clonotype1,clonotype1_consensus_2 +ATGGGAGGTCTCTCTG-1,True,ATGGGAGGTCTCTCTG-1_contig_3,True,603,TRB,TRBV3,None,TRBJ2-3,TRBC2,True,False,CTSVPAAWGVSAETLYF,TGTACTTCTGTGCCAGCAGCCTGGGGAGTTAGTGCAGAAACGCTGTATTTT,15442,2,clonotype1,None +ATTGGACCAGGTCCAC-1,True,ATTGGACCAGGTCCAC-1_contig_1,True,547,TRB,TRBV10,None,TRBJ2-5,TRBC2,True,True,CASSQTGGNQDTQYF,TGTGCCAGCAGCCAGACTGGGGGTAACCAAGACACCCAGTACTTT,64478,5,clonotype31,clonotype31_consensus_1 +CAACTAGAGGGATACC-1,True,CAACTAGAGGGATACC-1_contig_1,True,511,TRB,TRBV31,None,TRBJ1-4,TRBC1,True,True,CAWSRGTAPVF,TGTGCCTGGAGTCGCGGGACAGCCCCTGTTTTC,63324,3,clonotype32,clonotype32_consensus_1 +CAACTAGAGGGATACC-1,True,CAACTAGAGGGATACC-1_contig_2,True,548,TRA,TRAV9-1,None,TRAJ52,TRAC,True,True,CAVSAGGANTGKLTF,TGTGCTGTGAGCGCGGGTGGAGCTAACACTGGAAAGCTCACGTTT,5574,2,clonotype32,clonotype32_consensus_2 +CAACTAGAGGGATACC-1,True,CAACTAGAGGGATACC-1_contig_3,True,301,TRA,None,None,TRAJ44,TRAC,False,False,None,None,6878,2,clonotype32,None +CACACCTAGGGCACTA-1,True,CACACCTAGGGCACTA-1_contig_1,True,715,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSIHANTEVFF,TGTGCCAGCAGTATCCACGCAAACACAGAAGTCTTCTTT,29540,14,clonotype33,clonotype33_consensus_1 +CACACCTAGGGCACTA-1,True,CACACCTAGGGCACTA-1_contig_2,True,545,TRA,TRAV9-1,None,TRAJ56,TRAC,True,True,CAVSATGGNNKLTF,TGTGCTGTGAGCGCTACTGGAGGCAATAATAAGCTGACTTTT,12960,10,clonotype33,clonotype33_consensus_2 +CACACCTAGGGCACTA-1,True,CACACCTAGGGCACTA-1_contig_3,True,857,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,29750,14,clonotype33,None +CACACCTAGGGCACTA-1,True,CACACCTAGGGCACTA-1_contig_4,True,533,Multi,TRDV1,None,TRAJ57,TRAC,True,False,None,None,3470,2,clonotype33,None +CACCACTAGTTAGCGG-1,True,CACCACTAGTTAGCGG-1_contig_1,True,571,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,40196,2,clonotype2,clonotype2_consensus_2 +CACCACTAGTTAGCGG-1,True,CACCACTAGTTAGCGG-1_contig_2,True,520,TRA,TRAV8D-1,None,TRAJ33,TRAC,True,True,CATRRNYQLIW,TGTGCTACTAGGCGCAACTATCAGTTGATCTGG,15296,1,clonotype2,clonotype2_consensus_1 +CACCACTAGTTAGCGG-1,True,CACCACTAGTTAGCGG-1_contig_3,True,341,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,23522,1,clonotype2,None +CACCACTGTTTGTTGG-1,True,CACCACTGTTTGTTGG-1_contig_1,True,570,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,33008,5,clonotype2,clonotype2_consensus_2 +CACCACTGTTTGTTGG-1,True,CACCACTGTTTGTTGG-1_contig_2,True,522,TRA,TRAV8D-1,None,TRAJ33,TRAC,True,True,CATRRNYQLIW,TGTGCTACTAGGCGCAACTATCAGTTGATCTGG,14468,2,clonotype2,clonotype2_consensus_1 +CACCACTGTTTGTTGG-1,True,CACCACTGTTTGTTGG-1_contig_3,True,328,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,10842,1,clonotype2,None +CACCACTGTTTGTTGG-1,True,CACCACTGTTTGTTGG-1_contig_4,True,362,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,17386,2,clonotype2,None +CAGCGACGTGAAAGAG-1,True,CAGCGACGTGAAAGAG-1_contig_1,True,547,TRB,TRBV10,None,TRBJ2-2,TRBC2,True,True,CASSYWVANTGQLYF,TGTGCCAGCAGCTACTGGGTCGCAAACACCGGGCAGCTCTACTTT,22272,4,clonotype34,clonotype34_consensus_2 +CAGCGACGTGAAAGAG-1,True,CAGCGACGTGAAAGAG-1_contig_2,True,526,TRA,TRAV13-4-DV7,None,TRAJ13,TRAC,True,True,CAMSNSGTYQRF,TGTGCTATGTCCAATTCTGGGACTTACCAGAGGTTT,37764,6,clonotype34,clonotype34_consensus_1 +CAGCGACGTGAAAGAG-1,True,CAGCGACGTGAAAGAG-1_contig_3,True,346,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,14966,1,clonotype34,None +CATCCACTCCAGATCA-1,True,CATCCACTCCAGATCA-1_contig_1,True,516,TRB,TRBV13-3,None,TRBJ2-1,TRBC2,True,True,CASRVGNEQFF,TGTGCCAGCAGAGTGGGGAATGAGCAGTTCTTC,55066,9,clonotype35,clonotype35_consensus_1 +CATCCACTCCAGATCA-1,True,CATCCACTCCAGATCA-1_contig_2,True,525,TRA,TRAV6-6,None,TRAJ30,TRAC,True,True,CALGDPTNAYKVIF,TGTGCTCTGGGTGATCCCACAAATGCTTACAAAGTCATCTTT,22958,3,clonotype35,clonotype35_consensus_2 +CATGGCGAGGGTTCCC-1,True,CATGGCGAGGGTTCCC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQGGGNTEVFF,TGTGCCAGCAGCCAAGGGGGGGGGAACACAGAAGTCTTCTTT,43382,5,clonotype7,clonotype7_consensus_1 +CATGGCGAGGGTTCCC-1,True,CATGGCGAGGGTTCCC-1_contig_2,True,368,TRA,TRAV9-4,None,TRAJ16,TRAC,True,False,CAVTASSGQKLVF,TGTGCTGTGACGGCTTCAAGTGGCCAGAAGCTGGTTTTT,17390,1,clonotype7,None +CCATTCGTCATTCACT-1,True,CCATTCGTCATTCACT-1_contig_1,True,531,TRB,TRBV13-2,None,TRBJ1-6,TRBC1,True,True,CASGEINYNSPLYF,TGTGCCAGCGGTGAAATCAACTATAATTCGCCCCTCTACTTT,30074,3,clonotype36,clonotype36_consensus_1 +CCATTCGTCATTCACT-1,True,CCATTCGTCATTCACT-1_contig_2,True,553,TRA,TRAV4-3,None,TRAJ34,TRAC,True,True,CAASSNTDKVVF,TGTGCTGCTTCTTCCAATACCGACAAAGTCGTCTTT,45580,7,clonotype36,clonotype36_consensus_2 +CCTATTAAGGAATCGC-1,True,CCTATTAAGGAATCGC-1_contig_1,True,571,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,74296,3,clonotype3,clonotype3_consensus_1 +CCTCAGTCATTGAGCT-1,True,CCTCAGTCATTGAGCT-1_contig_1,True,547,TRA,TRAV6-1,None,TRAJ12,TRAC,True,True,CVLGDPGGYKVVF,TGTGTTCTGGGTGATCCTGGAGGCTATAAAGTGGTCTTT,15670,6,clonotype37,clonotype37_consensus_1 +CCTCAGTCATTGAGCT-1,True,CCTCAGTCATTGAGCT-1_contig_2,True,455,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,12382,5,clonotype37,None +CCTCAGTCATTGAGCT-1,True,CCTCAGTCATTGAGCT-1_contig_3,True,369,TRB,TRBV2,None,TRBJ2-1,TRBC2,True,False,CASSQDRGADYAEQFF,TGTGCCAGCAGCCAAGATAGGGGGGCGGACTATGCTGAGCAGTTCTTC,5944,1,clonotype37,None +CCTCAGTCATTGAGCT-1,True,CCTCAGTCATTGAGCT-1_contig_4,True,434,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,43908,9,clonotype37,None +CCTTCGAAGCACAGGT-1,True,CCTTCGAAGCACAGGT-1_contig_1,True,652,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGETINQDTQYF,TGTGCCAGCGGTGAGACAATTAACCAAGACACCCAGTACTTT,28912,14,clonotype38,clonotype38_consensus_2 +CCTTCGAAGCACAGGT-1,True,CCTTCGAAGCACAGGT-1_contig_2,True,591,TRA,TRAV7D-4,None,TRAJ7,TRAC,True,True,CAARDYSNNRLTL,TGTGCAGCTAGGGACTACAGCAACAACAGACTTACTTTG,7396,3,clonotype38,clonotype38_consensus_1 +CCTTCGAAGCACAGGT-1,True,CCTTCGAAGCACAGGT-1_contig_3,True,531,TRB,TRBV31,None,TRBJ1-4,TRBC1,True,True,CAWSPGQFNERLFF,TGTGCCTGGAGTCCGGGACAATTCAACGAAAGATTATTTTTC,8224,5,clonotype38,clonotype38_consensus_3 +CCTTCGAAGCACAGGT-1,True,CCTTCGAAGCACAGGT-1_contig_4,True,371,TRB,None,None,TRBJ2-4,TRBC2,False,False,None,None,2210,3,clonotype38,None +CCTTCGAAGCACAGGT-1,True,CCTTCGAAGCACAGGT-1_contig_5,True,521,TRB,TRBV17,None,TRBJ2-5,TRBC2,True,False,None,None,16424,6,clonotype38,None +CCTTCGAAGCACAGGT-1,True,CCTTCGAAGCACAGGT-1_contig_6,True,568,TRA,TRAV2,None,TRAJ12,TRAC,True,False,None,None,8518,3,clonotype38,None +CCTTTCTCACATGTGT-1,True,CCTTTCTCACATGTGT-1_contig_1,True,521,TRB,TRBV29,None,TRBJ2-3,TRBC2,True,True,CASSSWGGGAETLYF,TGTGCTAGCAGTTCCTGGGGGGGCGGTGCAGAAACGCTGTATTTT,46320,3,clonotype39,clonotype39_consensus_1 +CCTTTCTCACATGTGT-1,True,CCTTTCTCACATGTGT-1_contig_2,True,335,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,32062,1,clonotype39,None +CGAACATAGCCAGGAT-1,True,CGAACATAGCCAGGAT-1_contig_1,True,567,TRB,TRBV2,None,TRBJ2-5,TRBC2,True,True,CASSQDRWGKDTQYF,TGTGCCAGCAGCCAAGATAGGTGGGGGAAAGACACCCAGTACTTT,44362,6,clonotype40,clonotype40_consensus_2 +CGAACATAGCCAGGAT-1,True,CGAACATAGCCAGGAT-1_contig_2,True,551,TRA,TRAV9-1,None,TRAJ50,TRAC,True,True,CAVTGGASSSFSKLVF,TGTGCTGTGACGGGGGGAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,23390,3,clonotype40,clonotype40_consensus_1 +CGACCTTTCAGAAATG-1,True,CGACCTTTCAGAAATG-1_contig_1,True,556,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-1,TRBC2,True,True,CASGVAGANYAEQFF,TGTGCCAGCGGTGTGGCTGGGGCTAACTATGCTGAGCAGTTCTTC,63510,4,clonotype41,clonotype41_consensus_1 +CGACCTTTCAGAAATG-1,True,CGACCTTTCAGAAATG-1_contig_2,True,544,TRA,TRAV14D-1,None,TRAJ52,TRAC,True,False,None,None,12090,2,clonotype41,None +CGAGAAGCAAACCTAC-1,True,CGAGAAGCAAACCTAC-1_contig_1,True,568,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,53084,2,clonotype2,clonotype2_consensus_2 +CGAGAAGCAAACCTAC-1,True,CGAGAAGCAAACCTAC-1_contig_2,True,538,TRA,TRAV8D-1,None,TRAJ33,TRAC,True,True,CATRRNYQLIW,TGTGCTACTAGGCGCAACTATCAGTTGATCTGG,25904,1,clonotype2,clonotype2_consensus_1 +CGAGCACCACCAGGCT-1,True,CGAGCACCACCAGGCT-1_contig_1,True,514,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSDAGVSSYEQYF,TGTGCCAGCAGTGATGCGGGGGTGAGCTCCTATGAACAGTACTTC,51494,20,clonotype42,clonotype42_consensus_1 +CGAGCACCACCAGGCT-1,True,CGAGCACCACCAGGCT-1_contig_2,True,591,TRA,TRAV7-4,None,TRAJ9,TRAC,True,True,CAASEDMGYKLTF,TGTGCAGCTAGTGAAGACATGGGCTACAAACTTACCTTC,2194,1,clonotype42,clonotype42_consensus_2 +CGAGCACCACCAGGCT-1,True,CGAGCACCACCAGGCT-1_contig_3,True,353,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,3746,1,clonotype42,None +CGAGCACCACCAGGCT-1,True,CGAGCACCACCAGGCT-1_contig_4,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,18838,6,clonotype42,None +CGCGGTAGTCTGATTG-1,True,CGCGGTAGTCTGATTG-1_contig_1,True,571,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,9748,5,clonotype1,clonotype1_consensus_2 +CGCGGTAGTCTGATTG-1,True,CGCGGTAGTCTGATTG-1_contig_2,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,9594,5,clonotype1,clonotype1_consensus_1 +CGCGGTAGTCTGATTG-1,True,CGCGGTAGTCTGATTG-1_contig_3,True,315,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,56320,15,clonotype1,None +CGCGTTTCATCATCCC-1,True,CGCGTTTCATCATCCC-1_contig_1,True,562,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGVTGGYEQYF,TGTGCCAGCGGTGTGACTGGGGGGTATGAACAGTACTTC,8912,4,clonotype43,clonotype43_consensus_1 +CGCGTTTCATCATCCC-1,True,CGCGTTTCATCATCCC-1_contig_2,True,597,TRA,TRAV14D-3-DV8,None,TRAJ43,TRAC,True,True,CAASNNNNAPRF,TGTGCAGCAAGTAATAACAACAATGCCCCACGATTT,13076,6,clonotype43,clonotype43_consensus_2 +CGCGTTTCATCATCCC-1,True,CGCGTTTCATCATCCC-1_contig_3,True,443,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,46608,17,clonotype43,None +CGCGTTTCATCATCCC-1,True,CGCGTTTCATCATCCC-1_contig_4,True,444,TRA,None,None,TRAJ41,TRAC,False,False,None,None,4224,1,clonotype43,None +CGCGTTTCATCATCCC-1,True,CGCGTTTCATCATCCC-1_contig_5,True,317,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,5766,1,clonotype43,None +CGCGTTTCATGATCCA-1,True,CGCGTTTCATGATCCA-1_contig_1,True,583,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALEGGADRLTF,TGTGCTCTGGAGGGAGGTGCAGATAGACTCACCTTT,66552,5,clonotype44,clonotype44_consensus_1 +CGCGTTTCATGATCCA-1,True,CGCGTTTCATGATCCA-1_contig_2,True,670,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASSIYGGTSQNTLYF,TGTGCCAGCAGTATATATGGGGGGACTAGTCAAAACACCTTGTACTTT,11324,1,clonotype44,clonotype44_consensus_2 +CGCTATCAGGTGATTA-1,True,CGCTATCAGGTGATTA-1_contig_1,True,522,TRB,TRBV17,None,TRBJ1-1,TRBC1,True,True,CASSMGANTEVFF,TGTGCTAGCAGTATGGGTGCAAACACAGAAGTCTTCTTT,20564,6,clonotype45,clonotype45_consensus_2 +CGCTATCAGGTGATTA-1,True,CGCTATCAGGTGATTA-1_contig_2,True,549,TRA,TRAV6-6,None,TRAJ16,TRAC,True,True,CALRTSSGQKLVF,TGTGCTCTGAGAACTTCAAGTGGCCAGAAGCTGGTTTTT,12520,4,clonotype45,clonotype45_consensus_1 +CGCTATCAGGTGATTA-1,True,CGCTATCAGGTGATTA-1_contig_3,True,510,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,False,CQQPWGSSYEQYF,TGCCAGCAGCCCTGGGGGAGCTCCTATGAACAGTACTTC,28924,5,clonotype45,None +CGCTATCAGGTGATTA-1,True,CGCTATCAGGTGATTA-1_contig_4,True,388,TRA,TRAV4D-4,None,TRAJ2,TRAC,False,False,None,None,14162,2,clonotype45,None +CGGACTGTCCACGAAT-1,True,CGGACTGTCCACGAAT-1_contig_1,True,579,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,35374,15,clonotype1,clonotype1_consensus_2 +CGGACTGTCCACGAAT-1,True,CGGACTGTCCACGAAT-1_contig_2,True,508,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,27986,7,clonotype1,clonotype1_consensus_1 +CGGACTGTCCACGAAT-1,True,CGGACTGTCCACGAAT-1_contig_3,True,388,TRB,None,None,TRBJ1-5,TRBC1,False,False,None,None,14024,3,clonotype1,None +CGGAGTCCATTCACTT-1,True,CGGAGTCCATTCACTT-1_contig_1,True,524,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,52182,6,clonotype1,clonotype1_consensus_1 +CGGAGTCCATTCACTT-1,True,CGGAGTCCATTCACTT-1_contig_2,True,606,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,20368,3,clonotype1,clonotype1_consensus_2 +CGGCTAGAGTTAGCGG-1,True,CGGCTAGAGTTAGCGG-1_contig_1,True,551,TRA,TRAV9-1,None,TRAJ50,TRAC,True,True,CAVTGGASSSFSKLVF,TGTGCTGTGACGGGGGGAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,39714,7,clonotype46,clonotype46_consensus_1 +CGGCTAGAGTTAGCGG-1,True,CGGCTAGAGTTAGCGG-1_contig_2,True,337,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,29520,2,clonotype46,None +CGTGAGCGTACCGGCT-1,True,CGTGAGCGTACCGGCT-1_contig_1,True,607,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,24242,5,clonotype1,clonotype1_consensus_2 +CGTGAGCGTACCGGCT-1,True,CGTGAGCGTACCGGCT-1_contig_2,True,525,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,49894,9,clonotype1,clonotype1_consensus_1 +CGTTGGGTCGTTGACA-1,True,CGTTGGGTCGTTGACA-1_contig_1,True,701,TRB,TRBV19,None,TRBJ1-2,TRBC1,True,True,CASRDANSDYTF,TGTGCCAGCAGGGACGCAAACTCCGACTACACCTTC,55706,13,clonotype8,clonotype8_consensus_2 +CGTTGGGTCGTTGACA-1,True,CGTTGGGTCGTTGACA-1_contig_2,True,527,TRA,TRAV6N-7,None,TRAJ49,TRAC,True,True,CALGEPGYQNFYF,TGTGCTCTGGGTGAACCGGGTTACCAGAACTTCTATTTT,14996,4,clonotype8,clonotype8_consensus_1 +CGTTGGGTCGTTGACA-1,True,CGTTGGGTCGTTGACA-1_contig_3,True,302,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,2764,1,clonotype8,None +CTAACTTTCGAATCCA-1,True,CTAACTTTCGAATCCA-1_contig_1,True,695,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSIHANTEVFF,TGTGCCAGCAGTATCCACGCAAACACAGAAGTCTTCTTT,12774,3,clonotype47,clonotype47_consensus_1 +CTAACTTTCGAATCCA-1,True,CTAACTTTCGAATCCA-1_contig_2,True,434,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,42260,7,clonotype47,None +CTAACTTTCGAATCCA-1,True,CTAACTTTCGAATCCA-1_contig_3,True,491,TRA,TRAV9-1,None,TRAJ56,TRAC,True,False,CAVSATGGNNKLTF,TGTGCTGTGAGCGCTACTGGAGGCAATAATAAGCTGACTTTT,20918,4,clonotype47,None +CTAGAGTGTTATGCGT-1,True,CTAGAGTGTTATGCGT-1_contig_1,True,543,TRA,TRAV7D-3,None,TRAJ43,TRAC,True,True,CAALNNNNAPRF,TGTGCAGCCTTGAATAACAACAATGCCCCACGATTT,18042,2,clonotype48,clonotype48_consensus_1 +CTAGAGTGTTATGCGT-1,True,CTAGAGTGTTATGCGT-1_contig_2,True,568,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSADGSSYEQYF,TGCACCTGCAGTGCAGACGGAAGCTCCTATGAACAGTACTTC,27708,6,clonotype48,clonotype48_consensus_2 +CTAGAGTGTTATGCGT-1,True,CTAGAGTGTTATGCGT-1_contig_3,True,536,TRA,TRAV6N-7,None,TRAJ42,TRAC,True,False,CSGRYSGGSNAKLTF,TGCTCTGGGCGGTATTCTGGAGGAAGCAATGCAAAGCTAACCTTC,32632,3,clonotype48,None +CTCGGAGCAGTTCCCT-1,True,CTCGGAGCAGTTCCCT-1_contig_1,True,712,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASRTGNTEVFF,TGTGCCAGCAGGACAGGGAACACAGAAGTCTTCTTT,42580,10,clonotype49,clonotype49_consensus_1 +CTCGGAGCAGTTCCCT-1,True,CTCGGAGCAGTTCCCT-1_contig_2,True,588,TRA,TRAV5-1,None,TRAJ12,TRAC,True,True,CSASSSTGGYKVVF,TGCTCAGCAAGTTCCTCGACTGGAGGCTATAAAGTGGTCTTT,12394,4,clonotype49,clonotype49_consensus_2 +CTCGGAGCAGTTCCCT-1,True,CTCGGAGCAGTTCCCT-1_contig_3,True,361,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,23230,4,clonotype49,None +CTGGTCTTCATGGTCA-1,True,CTGGTCTTCATGGTCA-1_contig_1,True,531,TRA,TRAV6-2,None,TRAJ11,TRAC,True,True,CVLGDSGYNKLTF,TGTGTTCTGGGTGACTCGGGATACAACAAACTCACTTTT,29492,3,clonotype50,clonotype50_consensus_2 +CTGGTCTTCATGGTCA-1,True,CTGGTCTTCATGGTCA-1_contig_2,True,563,TRA,TRAV3-3,None,TRAJ15,TRAC,True,True,CAVSYQGGRALIF,TGCGCAGTCAGCTACCAGGGAGGCAGAGCTCTGATATTT,29648,6,clonotype50,clonotype50_consensus_1 +CTGGTCTTCATGGTCA-1,True,CTGGTCTTCATGGTCA-1_contig_3,True,330,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,14914,1,clonotype50,None +CTGTTTATCTGGTGTA-1,True,CTGTTTATCTGGTGTA-1_contig_1,True,565,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,True,CTCSADSDTEVFF,TGCACCTGCAGTGCAGATTCAGACACAGAAGTCTTCTTT,38106,9,clonotype51,clonotype51_consensus_2 +CTGTTTATCTGGTGTA-1,True,CTGTTTATCTGGTGTA-1_contig_2,True,569,TRA,TRAV4-4-DV10,None,TRAJ45,TRAC,True,True,CAAAMNTGGADRLTF,TGTGCTGCTGCCATGAATACAGGAGGTGCAGATAGACTCACCTTT,10718,2,clonotype51,clonotype51_consensus_1 +CTGTTTATCTGGTGTA-1,True,CTGTTTATCTGGTGTA-1_contig_3,True,429,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,27934,4,clonotype51,None +CTTACCGAGGTGGGTT-1,True,CTTACCGAGGTGGGTT-1_contig_1,True,512,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CAVTASSGQKLVF,TGTGCTGTGACGGCTTCAAGTGGCCAGAAGCTGGTTTTT,13218,2,clonotype9,clonotype9_consensus_2 +CTTACCGAGGTGGGTT-1,True,CTTACCGAGGTGGGTT-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQGGGNTEVFF,TGTGCCAGCAGCCAAGGGGGGGGGAACACAGAAGTCTTCTTT,63454,5,clonotype9,clonotype9_consensus_1 +GAAATGAAGGAGCGAG-1,True,GAAATGAAGGAGCGAG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCAGGACAGGGGAACACAGAAGTCTTCTTT,73538,9,clonotype52,clonotype52_consensus_1 +GAAGCAGAGCTCCTCT-1,True,GAAGCAGAGCTCCTCT-1_contig_1,True,603,TRA,TRAV14D-3-DV8,None,TRAJ45,TRAC,True,True,CAARHTGGADRLTF,TGTGCAGCAAGGCATACAGGAGGTGCAGATAGACTCACCTTT,12868,1,clonotype4,clonotype4_consensus_2 +GAAGCAGAGCTCCTCT-1,True,GAAGCAGAGCTCCTCT-1_contig_2,True,607,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASRKGTGGRDTQYF,TGTGCCAGCAGAAAAGGGACTGGGGGGAGAGACACCCAGTACTTT,39380,4,clonotype4,clonotype4_consensus_1 +GAAGCAGAGCTCCTCT-1,True,GAAGCAGAGCTCCTCT-1_contig_3,True,382,TRA,None,None,TRAJ41,TRAC,False,False,None,None,25330,1,clonotype4,None +GACAGAGAGCACCGTC-1,True,GACAGAGAGCACCGTC-1_contig_1,True,600,TRA,TRAV7D-4,None,TRAJ52,TRAC,True,True,CAASGNTGANTGKLTF,TGTGCAGCTAGTGGTAACACTGGAGCTAACACTGGAAAGCTCACGTTT,77450,4,clonotype53,clonotype53_consensus_1 +GACTGCGAGAAACCAT-1,True,GACTGCGAGAAACCAT-1_contig_1,True,516,TRB,TRBV31,None,TRBJ2-3,TRBC2,True,True,CAWRDWGRAETLYF,TGTGCCTGGAGGGACTGGGGGAGGGCAGAAACGCTGTATTTT,48596,7,clonotype10,clonotype10_consensus_1 +GACTGCGAGAAACCAT-1,True,GACTGCGAGAAACCAT-1_contig_2,True,594,TRA,TRAV7-4,None,TRAJ27,TRAC,True,True,CAASEDTNTGKLTF,TGTGCAGCTAGTGAGGACACCAATACAGGCAAATTAACCTTT,30434,5,clonotype10,clonotype10_consensus_2 +GATGAAAAGTGTGAAT-1,True,GATGAAAAGTGTGAAT-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASSRDNQNTLYF,TGTGCCAGCTCGCGGGACAATCAAAACACCTTGTACTTT,43282,12,clonotype54,clonotype54_consensus_2 +GATGAAAAGTGTGAAT-1,True,GATGAAAAGTGTGAAT-1_contig_2,True,586,TRA,TRAV6-6,None,TRAJ43,TRAC,True,True,CALGDRFNNNAPRF,TGTGCTCTGGGTGATCGATTTAACAACAATGCCCCACGATTT,6652,1,clonotype54,clonotype54_consensus_1 +GATGAAAAGTGTGAAT-1,True,GATGAAAAGTGTGAAT-1_contig_3,True,482,TRA,TRAV12D-2,None,TRAJ38,TRAC,True,False,CPVLLCSECLNVGDNSKLIW,TGCCCTGTACTACTGTGCTCTGAGTGCCTTAATGTTGGTGACAACAGTAAGCTGATTTGG,8674,3,clonotype54,None +GATGAAAAGTGTGAAT-1,True,GATGAAAAGTGTGAAT-1_contig_4,True,326,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,19056,3,clonotype54,None +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_1,True,529,TRA,TRAV6N-7,None,TRAJ17,TRAC,True,True,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,9742,8,clonotype5,clonotype5_consensus_1 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_2,True,514,TRB,TRBV14,None,TRBJ1-5,TRBC1,True,True,CASSPGTEAPLF,TGTGCCAGCAGTCCCGGGACCGAGGCTCCGCTTTTT,21206,20,clonotype5,clonotype5_consensus_2 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_3,True,407,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,6202,10,clonotype5,None +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_4,True,701,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,21360,12,clonotype5,None +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_5,True,349,TRA,TRAV6N-6,None,TRAJ17,TRAC,True,False,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,2524,1,clonotype5,clonotype5_consensus_1 +GCAGCCACAAAGGAAG-1,True,GCAGCCACAAAGGAAG-1_contig_6,True,332,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,16022,9,clonotype5,None +GCAGCCACAGTTCATG-1,True,GCAGCCACAGTTCATG-1_contig_1,True,566,TRA,TRAV14D-3-DV8,None,TRAJ40,TRAC,True,True,CAASAVTGNYKYVF,TGTGCAGCAAGTGCAGTTACAGGAAACTACAAATACGTCTTT,23556,6,clonotype55,clonotype55_consensus_1 +GCAGCCACAGTTCATG-1,True,GCAGCCACAGTTCATG-1_contig_2,True,519,TRB,TRBV13-3,None,TRBJ2-5,TRBC2,True,True,CASSDTGEDTQYF,TGTGCCAGCAGTGATACAGGGGAAGACACCCAGTACTTT,21378,5,clonotype55,clonotype55_consensus_2 +GCAGCCACAGTTCATG-1,True,GCAGCCACAGTTCATG-1_contig_3,True,374,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,34082,5,clonotype55,None +GCGAGAATCCTACAGA-1,True,GCGAGAATCCTACAGA-1_contig_1,True,522,TRA,TRAV14D-2,None,TRAJ31,TRAC,True,True,CAASDDNNRIFF,TGTGCAGCAAGTGACGACAATAACAGAATCTTCTTT,45916,6,clonotype56,clonotype56_consensus_1 +GCGGGTTGTAAAGGAG-1,True,GCGGGTTGTAAAGGAG-1_contig_1,True,516,TRB,TRBV31,None,TRBJ2-3,TRBC2,True,True,CAWRDWGRAETLYF,TGTGCCTGGAGGGACTGGGGGAGGGCAGAAACGCTGTATTTT,22152,2,clonotype10,clonotype10_consensus_1 +GCGGGTTGTAAAGGAG-1,True,GCGGGTTGTAAAGGAG-1_contig_2,True,594,TRA,TRAV7-4,None,TRAJ27,TRAC,True,True,CAASEDTNTGKLTF,TGTGCAGCTAGTGAGGACACCAATACAGGCAAATTAACCTTT,29882,2,clonotype10,clonotype10_consensus_2 +GCGGGTTGTAAAGGAG-1,True,GCGGGTTGTAAAGGAG-1_contig_3,True,557,TRA,TRAV4-3,None,TRAJ30,TRAC,True,False,None,None,26254,2,clonotype10,None +GCTGCAGCAAGCCGTC-1,True,GCTGCAGCAAGCCGTC-1_contig_1,True,567,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-2,TRBC2,True,True,CASGEMENTGQLYF,TGTGCCAGCGGTGAAATGGAGAACACCGGGCAGCTCTACTTT,63236,12,clonotype57,clonotype57_consensus_2 +GCTGCAGCAAGCCGTC-1,True,GCTGCAGCAAGCCGTC-1_contig_2,True,676,TRA,TRAV9D-2,None,TRAJ56,TRAC,True,True,CAVSMATGGNNKLTF,TGTGCTGTGAGCATGGCTACTGGAGGCAATAATAAGCTGACTTTT,10264,1,clonotype57,clonotype57_consensus_1 +GCTTCCATCTTTACAC-1,True,GCTTCCATCTTTACAC-1_contig_1,True,511,TRB,TRBV13-1,None,TRBJ2-5,TRBC2,True,True,CASKRLGAQDTQYF,TGTGCCAGCAAAAGACTGGGGGCCCAAGACACCCAGTACTTT,32244,14,clonotype58,clonotype58_consensus_2 +GCTTCCATCTTTACAC-1,True,GCTTCCATCTTTACAC-1_contig_2,True,553,TRA,TRAV4-3,None,TRAJ30,TRAC,True,True,CAAETNAYKVIF,TGTGCTGCTGAAACAAATGCTTACAAAGTCATCTTT,31848,16,clonotype58,clonotype58_consensus_1 +GCTTCCATCTTTACAC-1,True,GCTTCCATCTTTACAC-1_contig_3,True,602,TRA,TRAV8D-2,None,TRAJ24,TRAC,True,False,None,None,3290,1,clonotype58,None +GCTTCCATCTTTACAC-1,True,GCTTCCATCTTTACAC-1_contig_4,True,306,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,5690,6,clonotype58,None +GGACAAGGTCGAACAG-1,True,GGACAAGGTCGAACAG-1_contig_1,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,74196,5,clonotype59,clonotype59_consensus_1 +GGACAGAAGCTTTGGT-1,True,GGACAGAAGCTTTGGT-1_contig_1,True,713,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASSSDWGLSQNTLYF,TGTGCCAGCAGTAGCGACTGGGGCCTGAGTCAAAACACCTTGTACTTT,41660,6,clonotype60,clonotype60_consensus_1 +GGACAGAAGCTTTGGT-1,True,GGACAGAAGCTTTGGT-1_contig_2,True,376,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,22436,2,clonotype60,None +GGACAGAAGCTTTGGT-1,True,GGACAGAAGCTTTGGT-1_contig_3,True,578,TRA,TRAV12D-2,None,TRAJ42,TRAC,True,False,None,None,10464,2,clonotype60,None +GGATTACGTTCGGGCT-1,True,GGATTACGTTCGGGCT-1_contig_1,True,478,TRA,TRAV4-3,None,TRAJ31,None,True,True,CAADNNRIFF,TGTGCTGCTGACAATAACAGAATCTTCTTT,65518,3,clonotype61,clonotype61_consensus_1 +GGATTACGTTCGGGCT-1,True,GGATTACGTTCGGGCT-1_contig_2,True,541,TRB,TRBV10,None,TRBJ2-7,TRBC2,True,True,CASSTDWGYEQYF,TGTGCCAGCAGCACCGACTGGGGCTATGAACAGTACTTC,6690,3,clonotype61,clonotype61_consensus_2 +GGCAATTGTCCCGACA-1,True,GGCAATTGTCCCGACA-1_contig_1,True,517,TRB,TRBV14,None,TRBJ2-4,TRBC2,True,True,CASSFHGKNTLYF,TGTGCCAGCAGTTTCCACGGAAAAAACACCTTGTACTTT,19524,3,clonotype62,clonotype62_consensus_2 +GGCAATTGTCCCGACA-1,True,GGCAATTGTCCCGACA-1_contig_2,True,542,TRA,TRAV9-1,None,TRAJ9,TRAC,True,True,CAVRKNMGYKLTF,TGTGCTGTGAGGAAGAACATGGGCTACAAACTTACCTTC,34030,9,clonotype62,clonotype62_consensus_1 +GGCAATTGTCCCGACA-1,True,GGCAATTGTCCCGACA-1_contig_3,True,357,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,18608,4,clonotype62,None +GGCAATTGTGTCTGAT-1,True,GGCAATTGTGTCTGAT-1_contig_1,True,547,TRB,TRBV10,None,TRBJ2-2,TRBC2,True,True,CASSYWVANTGQLYF,TGTGCCAGCAGCTACTGGGTCGCAAACACCGGGCAGCTCTACTTT,30016,12,clonotype11,clonotype11_consensus_4 +GGCAATTGTGTCTGAT-1,True,GGCAATTGTGTCTGAT-1_contig_2,True,604,TRA,TRAV13-4-DV7,None,TRAJ13,TRAC,True,True,CAMSNSGTYQRF,TGTGCTATGTCCAATTCTGGGACTTACCAGAGGTTT,21508,8,clonotype11,clonotype11_consensus_2 +GGCAATTGTGTCTGAT-1,True,GGCAATTGTGTCTGAT-1_contig_3,True,550,TRB,TRBV10,None,TRBJ2-5,TRBC2,True,True,CASSYKADWGRDTQYF,TGTGCCAGCAGCTATAAGGCAGACTGGGGGAGAGACACCCAGTACTTT,11640,4,clonotype11,clonotype11_consensus_1 +GGCAATTGTGTCTGAT-1,True,GGCAATTGTGTCTGAT-1_contig_4,True,632,TRA,TRAV17,None,TRAJ34,TRAC,True,True,CALEVAASNTDKVVF,TGTGCACTGGAGGTCGCAGCTTCCAATACCGACAAAGTCGTCTTT,13898,4,clonotype11,clonotype11_consensus_3 +GGTGCGTGTGCACGAA-1,True,GGTGCGTGTGCACGAA-1_contig_1,True,514,TRB,TRBV14,None,TRBJ1-5,TRBC1,True,True,CASSPGTEAPLF,TGTGCCAGCAGTCCCGGGACCGAGGCTCCGCTTTTT,28270,20,clonotype5,clonotype5_consensus_2 +GGTGCGTGTGCACGAA-1,True,GGTGCGTGTGCACGAA-1_contig_2,True,542,TRA,TRAV6N-7,None,TRAJ17,TRAC,True,True,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,22156,13,clonotype5,clonotype5_consensus_1 +GGTGCGTGTGCACGAA-1,True,GGTGCGTGTGCACGAA-1_contig_3,True,315,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,2468,1,clonotype5,None +GGTGCGTGTGCACGAA-1,True,GGTGCGTGTGCACGAA-1_contig_4,True,579,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,16600,9,clonotype5,None +GGTGCGTGTGCACGAA-1,True,GGTGCGTGTGCACGAA-1_contig_5,True,326,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,5686,5,clonotype5,None +GGTGTTAAGACCACGA-1,True,GGTGTTAAGACCACGA-1_contig_1,True,570,TRB,TRBV20,None,TRBJ1-2,TRBC1,True,True,CGARRQSNSDYTF,TGTGGTGCTAGACGACAATCAAACTCCGACTACACCTTC,68162,9,clonotype63,clonotype63_consensus_2 +GGTGTTAAGACCACGA-1,True,GGTGTTAAGACCACGA-1_contig_2,True,676,TRA,TRAV9-4,None,TRAJ50,TRAC,True,True,CAVSIASSSFSKLVF,TGTGCTGTGAGCATAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,8316,1,clonotype63,clonotype63_consensus_1 +GTACTCCGTTATTCTC-1,True,GTACTCCGTTATTCTC-1_contig_1,True,597,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,14644,4,clonotype1,clonotype1_consensus_2 +GTACTCCGTTATTCTC-1,True,GTACTCCGTTATTCTC-1_contig_2,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,59060,11,clonotype1,clonotype1_consensus_1 +GTACTTTCACGTCAGC-1,True,GTACTTTCACGTCAGC-1_contig_1,True,521,TRA,TRAV6-5,None,TRAJ30,TRAC,True,True,CALSENTNAYKVIF,TGTGCTCTGAGTGAGAACACAAATGCTTACAAAGTCATCTTT,20710,5,clonotype64,clonotype64_consensus_1 +GTACTTTCACGTCAGC-1,True,GTACTTTCACGTCAGC-1_contig_2,True,612,TRB,TRBV2,None,TRBJ1-6,TRBC1,True,True,CASSQGQGNNSPLYF,TGTGCCAGCAGCCAAGGACAGGGGAATAATTCGCCCCTCTACTTT,19528,6,clonotype64,clonotype64_consensus_2 +GTACTTTCACGTCAGC-1,True,GTACTTTCACGTCAGC-1_contig_3,True,326,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,13394,2,clonotype64,None +GTACTTTCACGTCAGC-1,True,GTACTTTCACGTCAGC-1_contig_4,True,547,TRA,TRAV5-1,None,TRAJ26,TRAC,True,False,None,None,17324,3,clonotype64,None +GTAGTCAGTAAATGAC-1,True,GTAGTCAGTAAATGAC-1_contig_1,True,534,TRA,TRAV6N-7,None,TRAJ58,TRAC,True,True,CALGVQGTGSKLSF,TGTGCTCTGGGTGTGCAAGGCACTGGGTCTAAGCTGTCATTT,34850,6,clonotype65,clonotype65_consensus_1 +GTAGTCAGTAAATGAC-1,True,GTAGTCAGTAAATGAC-1_contig_2,True,525,TRB,TRBV5,None,TRBJ2-3,TRBC2,True,True,CASSQDWVGGAETLYF,TGTGCCAGCAGCCAAGATTGGGTTGGGGGTGCAGAAACGCTGTATTTT,29314,3,clonotype65,clonotype65_consensus_2 +GTAGTCAGTAAATGAC-1,True,GTAGTCAGTAAATGAC-1_contig_3,True,610,TRB,TRBV3,None,TRBJ2-4,TRBC2,True,False,CQQLTGLGTSQNTLYF,TGCCAGCAGCTCACGGGACTGGGGACTAGTCAAAACACCTTGTACTTT,12570,4,clonotype65,None +GTAGTCAGTAAATGAC-1,True,GTAGTCAGTAAATGAC-1_contig_4,True,552,TRA,TRAV15-2-DV6-2,None,TRAJ45,TRAC,True,False,None,None,424,5,clonotype65,None +GTATCTTGTACAAGTA-1,True,GTATCTTGTACAAGTA-1_contig_1,True,529,TRA,TRAV6N-7,None,TRAJ17,TRAC,True,True,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,25644,20,clonotype5,clonotype5_consensus_1 +GTATCTTGTACAAGTA-1,True,GTATCTTGTACAAGTA-1_contig_2,True,515,TRB,TRBV14,None,TRBJ1-5,TRBC1,True,True,CASSPGTEAPLF,TGTGCCAGCAGTCCCGGGACCGAGGCTCCGCTTTTT,22744,9,clonotype5,clonotype5_consensus_2 +GTATCTTGTACAAGTA-1,True,GTATCTTGTACAAGTA-1_contig_3,True,319,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,15054,5,clonotype5,None +GTATCTTGTACAAGTA-1,True,GTATCTTGTACAAGTA-1_contig_4,True,439,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,2778,1,clonotype5,None +GTCACAAGTACCGTTA-1,True,GTCACAAGTACCGTTA-1_contig_1,True,547,TRB,TRBV10,None,TRBJ2-2,TRBC2,True,True,CASSYWVANTGQLYF,TGTGCCAGCAGCTACTGGGTCGCAAACACCGGGCAGCTCTACTTT,16776,3,clonotype11,clonotype11_consensus_4 +GTCACAAGTACCGTTA-1,True,GTCACAAGTACCGTTA-1_contig_2,True,550,TRB,TRBV10,None,TRBJ2-5,TRBC2,True,True,CASSYKADWGRDTQYF,TGTGCCAGCAGCTATAAGGCAGACTGGGGGAGAGACACCCAGTACTTT,12570,3,clonotype11,clonotype11_consensus_1 +GTCACAAGTACCGTTA-1,True,GTCACAAGTACCGTTA-1_contig_3,True,612,TRA,TRAV13-4-DV7,None,TRAJ13,TRAC,True,True,CAMSNSGTYQRF,TGTGCTATGTCCAATTCTGGGACTTACCAGAGGTTT,39452,6,clonotype11,clonotype11_consensus_2 +GTCACAAGTACCGTTA-1,True,GTCACAAGTACCGTTA-1_contig_4,True,601,TRA,TRAV17,None,TRAJ34,TRAC,True,True,CALEVAASNTDKVVF,TGTGCACTGGAGGTCGCAGCTTCCAATACCGACAAAGTCGTCTTT,8030,2,clonotype11,clonotype11_consensus_3 +GTCCTCAGTAGCTAAA-1,True,GTCCTCAGTAGCTAAA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ1-3,TRBC1,True,True,CASSQDRGAGNTLYF,TGTGCCAGCAGCCAAGATCGGGGGGCTGGAAATACGCTCTATTTT,75846,6,clonotype66,clonotype66_consensus_1 +GTCCTCAGTAGCTAAA-1,True,GTCCTCAGTAGCTAAA-1_contig_2,True,345,TRA,TRAV6D-7,None,TRAJ17,TRAC,True,False,CALRTNSAGNKLTF,TGTGCTCTGAGGACTAACAGTGCAGGGAACAAGCTAACTTTT,8,4,clonotype66,None +GTTAAGCCATATACCG-1,True,GTTAAGCCATATACCG-1_contig_1,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,21878,6,clonotype1,clonotype1_consensus_1 +GTTAAGCCATATACCG-1,True,GTTAAGCCATATACCG-1_contig_2,True,531,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,3218,3,clonotype1,clonotype1_consensus_2 +GTTAAGCCATATACCG-1,True,GTTAAGCCATATACCG-1_contig_3,True,427,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,53744,9,clonotype1,None +GTTCATTGTCCCGACA-1,True,GTTCATTGTCCCGACA-1_contig_1,True,656,TRA,TRAV7-1,None,TRAJ7,TRAC,True,True,CAVRAYSNNRLTL,TGTGCAGTGAGGGCCTACAGCAACAACAGACTTACTTTG,21080,7,clonotype67,clonotype67_consensus_2 +GTTCATTGTCCCGACA-1,True,GTTCATTGTCCCGACA-1_contig_2,True,568,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGETINQDTQYF,TGTGCCAGCGGTGAAACAATTAACCAAGACACCCAGTACTTT,26828,9,clonotype67,clonotype67_consensus_1 +GTTCATTGTCCCGACA-1,True,GTTCATTGTCCCGACA-1_contig_3,True,514,TRA,TRAV1,None,TRAJ23,TRAC,True,False,None,None,24160,5,clonotype67,None +GTTCATTGTCCCGACA-1,True,GTTCATTGTCCCGACA-1_contig_4,True,318,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,6176,1,clonotype67,None +GTTCGGGAGTAACCCT-1,True,GTTCGGGAGTAACCCT-1_contig_1,True,732,TRA,TRAV9-4,None,TRAJ2,TRAC,True,True,CALNTGGLSGKLTF,TGTGCTCTGAATACTGGAGGACTAAGTGGTAAATTAACATTC,37020,3,clonotype68,clonotype68_consensus_2 +GTTCGGGAGTAACCCT-1,True,GTTCGGGAGTAACCCT-1_contig_2,True,633,TRB,TRBV13-3,None,TRBJ1-6,TRBC1,True,True,CASSAQNNSPLYF,TGTGCCAGCAGTGCTCAGAATAATTCGCCCCTCTACTTT,25658,2,clonotype68,clonotype68_consensus_1 +GTTCGGGAGTAACCCT-1,True,GTTCGGGAGTAACCCT-1_contig_3,True,506,TRA,TRAV7D-5,None,TRAJ13,TRAC,True,True,CAPIANSGTYQRF,TGTGCACCTATTGCAAATTCTGGGACTTACCAGAGGTTT,15764,1,clonotype68,clonotype68_consensus_3 +GTTCTCGAGTCTCAAC-1,True,GTTCTCGAGTCTCAAC-1_contig_1,True,548,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCAGGGCAAATGCTTACAAAGTCATCTTT,6436,3,clonotype69,clonotype69_consensus_1 +GTTCTCGAGTCTCAAC-1,True,GTTCTCGAGTCTCAAC-1_contig_2,True,627,TRB,TRBV2,None,TRBJ2-2,TRBC2,True,True,CASSQEEGANTGQLYF,TGTGCCAGCAGCCAAGAGGAGGGGGCAAACACCGGGCAGCTCTACTTT,7808,3,clonotype69,clonotype69_consensus_2 +GTTCTCGAGTCTCAAC-1,True,GTTCTCGAGTCTCAAC-1_contig_3,True,424,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,62868,18,clonotype69,None +GTTTCTACATGCCCGA-1,True,GTTTCTACATGCCCGA-1_contig_1,True,526,TRA,TRAV6N-7,None,TRAJ49,TRAC,True,True,CALGEPGYQNFYF,TGTGCTCTGGGTGAACCGGGTTACCAGAACTTCTATTTT,14050,4,clonotype8,clonotype8_consensus_1 +GTTTCTACATGCCCGA-1,True,GTTTCTACATGCCCGA-1_contig_2,True,666,TRB,TRBV19,None,TRBJ1-2,TRBC1,True,True,CASRDANSDYTF,TGTGCCAGCAGGGACGCAAACTCCGACTACACCTTC,52602,15,clonotype8,clonotype8_consensus_2 +GTTTCTACATGCCCGA-1,True,GTTTCTACATGCCCGA-1_contig_3,True,326,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,8110,1,clonotype8,None +TAAGCGTCAAGCGCTC-1,True,TAAGCGTCAAGCGCTC-1_contig_1,True,565,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSGTGGYEQYF,TGCACCTGCAGTGGGACTGGGGGCTATGAACAGTACTTC,53792,12,clonotype70,clonotype70_consensus_2 +TAAGCGTCAAGCGCTC-1,True,TAAGCGTCAAGCGCTC-1_contig_2,True,527,TRA,TRAV6-5,None,TRAJ52,TRAC,True,True,CALRTNTGANTGKLTF,TGTGCTCTGAGGACTAACACTGGAGCTAACACTGGAAAGCTCACGTTT,12504,2,clonotype70,clonotype70_consensus_1 +TAAGCGTCAAGCGCTC-1,True,TAAGCGTCAAGCGCTC-1_contig_3,True,554,TRA,TRAV9-1,None,TRAJ52,TRAC,True,True,CAASPANTGANTGKLTF,TGTGCTGCGAGCCCCGCTAACACTGGAGCTAACACTGGAAAGCTCACGTTT,12274,3,clonotype70,clonotype70_consensus_3 +TAAGTGCTCCTTGCCA-1,True,TAAGTGCTCCTTGCCA-1_contig_1,True,594,TRA,TRAV7-4,None,TRAJ5,TRAC,True,True,CAASGTQVVGQLTF,TGTGCAGCTAGTGGGACACAGGTTGTGGGGCAGCTCACTTTC,31136,5,clonotype71,clonotype71_consensus_1 +TAAGTGCTCCTTGCCA-1,True,TAAGTGCTCCTTGCCA-1_contig_2,True,522,TRB,TRBV31,None,TRBJ1-3,TRBC1,True,True,CAWRQNSGNTLYF,TGTGCCTGGAGACAGAATTCTGGAAATACGCTCTATTTT,33362,5,clonotype71,clonotype71_consensus_2 +TAAGTGCTCCTTGCCA-1,True,TAAGTGCTCCTTGCCA-1_contig_3,True,402,TRA,TRAV6-7-DV9,None,TRAJ13,TRAC,True,False,CALIQILGLTRGLEL,TGTGCTCTGATTCAAATTCTGGGACTTACCAGAGGTTTGGAACTG,13630,1,clonotype71,None +TACGGGCGTCATATGC-1,True,TACGGGCGTCATATGC-1_contig_1,True,552,TRB,TRBV20,TRBD1,TRBJ1-2,TRBC1,True,True,CGVGTGGANSDYTF,TGTGGTGTCGGGACAGGGGGCGCGAACTCCGACTACACCTTC,41534,8,clonotype2,clonotype2_consensus_2 +TACGGGCGTCATATGC-1,True,TACGGGCGTCATATGC-1_contig_2,True,522,TRA,TRAV8D-1,None,TRAJ33,TRAC,True,True,CATRRNYQLIW,TGTGCTACTAGGCGCAACTATCAGTTGATCTGG,7788,1,clonotype2,clonotype2_consensus_1 +TACGGGCGTCATATGC-1,True,TACGGGCGTCATATGC-1_contig_3,True,554,TRA,TRAV10D,None,TRAJ18,TRAC,True,False,None,None,7236,1,clonotype2,None +TACGGGCGTCATATGC-1,True,TACGGGCGTCATATGC-1_contig_4,True,352,TRB,TRBV19,None,TRBJ1-6,TRBC1,True,False,None,None,12526,1,clonotype2,None +TAGTTGGGTATTCTCT-1,True,TAGTTGGGTATTCTCT-1_contig_1,True,514,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,66450,7,clonotype1,clonotype1_consensus_1 +TAGTTGGGTATTCTCT-1,True,TAGTTGGGTATTCTCT-1_contig_2,True,528,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,5722,2,clonotype1,clonotype1_consensus_2 +TATCTCACATGCTGGC-1,True,TATCTCACATGCTGGC-1_contig_1,True,585,TRA,TRAV12-3,None,TRAJ58,TRAC,True,True,CALRQGTGSKLSF,TGTGCTTTGAGGCAAGGCACTGGGTCTAAGCTGTCATTT,51526,7,clonotype72,clonotype72_consensus_1 +TATCTCACATGCTGGC-1,True,TATCTCACATGCTGGC-1_contig_2,True,583,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGDRGQGYEQYF,TGTGCCAGCGGTGATCGGGGACAGGGATATGAACAGTACTTC,23630,2,clonotype72,clonotype72_consensus_2 +TCAACGACATGGTCAT-1,True,TCAACGACATGGTCAT-1_contig_1,True,603,TRA,TRAV14D-3-DV8,None,TRAJ45,TRAC,True,True,CAARHTGGADRLTF,TGTGCAGCAAGGCATACAGGAGGTGCAGATAGACTCACCTTT,25206,4,clonotype4,clonotype4_consensus_2 +TCAACGACATGGTCAT-1,True,TCAACGACATGGTCAT-1_contig_2,True,721,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASRKGTGGRDTQYF,TGTGCCAGCAGAAAAGGGACTGGGGGGAGAGACACCCAGTACTTT,32924,5,clonotype4,clonotype4_consensus_1 +TCAACGACATGGTCAT-1,True,TCAACGACATGGTCAT-1_contig_3,True,329,TRB,TRBV10,None,None,TRBC1,False,False,None,None,15154,1,clonotype4,None +TCAACGACATGGTCAT-1,True,TCAACGACATGGTCAT-1_contig_4,True,599,TRA,TRAV7-4,None,TRAJ49,TRAC,True,False,CAASEQE,TGTGCAGCTAGTGAGCAGGAA,3578,1,clonotype4,None +TCAACGAGTAGCACGA-1,True,TCAACGAGTAGCACGA-1_contig_1,True,521,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSDAGQSSYEQYF,TGTGCCAGCAGTGATGCCGGACAGAGCTCCTATGAACAGTACTTC,55040,18,clonotype73,clonotype73_consensus_2 +TCAACGAGTAGCACGA-1,True,TCAACGAGTAGCACGA-1_contig_2,True,591,TRA,TRAV7D-4,None,TRAJ9,TRAC,True,True,CAASEDMGYKLTF,TGTGCAGCTAGTGAGGACATGGGCTACAAACTTACCTTC,17978,9,clonotype73,clonotype73_consensus_1 +TCAACGAGTAGCACGA-1,True,TCAACGAGTAGCACGA-1_contig_3,True,621,TRB,TRBV1,None,TRBJ2-1,TRBC2,True,False,None,None,4354,2,clonotype73,None +TCAATCTAGCTGCCCA-1,True,TCAATCTAGCTGCCCA-1_contig_1,True,585,TRA,TRAV7D-4,None,TRAJ31,TRAC,True,True,CAANNNNRIFF,TGTGCAGCCAATAACAATAACAGAATCTTCTTT,36166,4,clonotype74,clonotype74_consensus_1 +TCAATCTTCAGAGACG-1,True,TCAATCTTCAGAGACG-1_contig_1,True,600,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,17898,4,clonotype75,clonotype75_consensus_1 +TCAATCTTCAGAGACG-1,True,TCAATCTTCAGAGACG-1_contig_2,True,495,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,False,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,21344,3,clonotype75,None +TCAATCTTCAGAGACG-1,True,TCAATCTTCAGAGACG-1_contig_3,True,347,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,37500,5,clonotype75,None +TCACGAATCAGCTCTC-1,True,TCACGAATCAGCTCTC-1_contig_1,True,718,TRA,TRAV9-4,None,TRAJ34,TRAC,True,True,CAASISNTDKVVF,TGTGCTGCGAGCATCTCCAATACCGACAAAGTCGTCTTT,30010,3,clonotype76,clonotype76_consensus_2 +TCACGAATCAGCTCTC-1,True,TCACGAATCAGCTCTC-1_contig_2,True,698,TRB,TRBV19,None,TRBJ2-3,TRBC2,True,True,CASSSDWGSETLYF,TGTGCCAGCAGTAGTGACTGGGGGTCAGAAACGCTGTATTTT,48138,9,clonotype76,clonotype76_consensus_1 +TCAGATGTCAGAGACG-1,True,TCAGATGTCAGAGACG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,66354,39,clonotype77,clonotype77_consensus_1 +TCAGGATGTATTAGCC-1,True,TCAGGATGTATTAGCC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCTGGACAGGGTAACACAGAAGTCTTCTTT,51466,7,clonotype78,clonotype78_consensus_2 +TCAGGATGTATTAGCC-1,True,TCAGGATGTATTAGCC-1_contig_2,True,718,TRA,TRAV9D-2,None,TRAJ17,TRAC,True,True,CAATNSAGNKLTF,TGTGCTGCGACTAACAGTGCAGGGAACAAGCTAACTTTT,10310,2,clonotype78,clonotype78_consensus_1 +TCAGGATGTATTAGCC-1,True,TCAGGATGTATTAGCC-1_contig_3,True,520,TRA,TRAV15-1-DV6-1,None,TRAJ18,TRAC,True,False,CSLGADRGSALGRLHF,TGCTCTCTGGGAGCCGATAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,3408,2,clonotype78,None +TCAGGATGTATTAGCC-1,True,TCAGGATGTATTAGCC-1_contig_4,True,356,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,9160,3,clonotype78,None +TCATTACGTGTGCGTC-1,True,TCATTACGTGTGCGTC-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-7,TRBC2,True,True,CASSINWGGEQYF,TGTGCCAGCAGTATAAACTGGGGGGGCGAACAGTACTTC,40606,5,clonotype6,clonotype6_consensus_1 +TCATTACGTGTGCGTC-1,True,TCATTACGTGTGCGTC-1_contig_2,True,535,TRA,TRAV6N-7,None,TRAJ49,TRAC,True,True,CALGGKKGYQNFYF,TGTGCTCTGGGTGGTAAGAAGGGTTACCAGAACTTCTATTTT,17558,2,clonotype6,clonotype6_consensus_2 +TCATTACGTGTGCGTC-1,True,TCATTACGTGTGCGTC-1_contig_3,True,350,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,20666,1,clonotype6,None +TCGTAGACAGCTGGCT-1,True,TCGTAGACAGCTGGCT-1_contig_1,True,550,TRA,TRAV6-1,None,TRAJ45,TRAC,True,True,CVLGDEAGGADRLTF,TGTGTTCTGGGTGATGAGGCAGGAGGTGCAGATAGACTCACCTTT,27320,2,clonotype79,clonotype79_consensus_1 +TCGTAGACAGCTGGCT-1,True,TCGTAGACAGCTGGCT-1_contig_2,True,627,TRB,TRBV31,None,TRBJ1-2,TRBC1,True,False,None,None,51778,2,clonotype79,None +TCTATTGGTTGTGGAG-1,True,TCTATTGGTTGTGGAG-1_contig_1,True,555,TRA,TRAV8N-2,None,TRAJ44,TRAC,True,True,CAPVITGSGGKLTL,TGTGCTCCCGTCATTACTGGCAGTGGTGGAAAACTCACTTTG,55542,14,clonotype80,clonotype80_consensus_1 +TCTATTGGTTGTGGAG-1,True,TCTATTGGTTGTGGAG-1_contig_2,True,529,TRB,TRBV20,None,TRBJ2-5,TRBC2,True,True,CGALTGNTQYF,TGTGGTGCTTTGACAGGAAACACCCAGTACTTT,7600,2,clonotype80,clonotype80_consensus_2 +TCTATTGGTTGTGGAG-1,True,TCTATTGGTTGTGGAG-1_contig_3,True,527,TRA,TRAV11,None,TRAJ48,TRAC,True,False,CWMTLPPTSVWWGYGNEKITF,TGCTGGATGACACTGCCACCTACATCTGTGTGGTGGGGCTATGGAAATGAGAAAATAACTTTT,13132,3,clonotype80,None +TCTGAGATCACTCTTA-1,True,TCTGAGATCACTCTTA-1_contig_1,True,579,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASSEPATGGDYEQYF,TGTGCCAGCAGTGAGCCGGCGACGGGGGGCGATTATGAACAGTACTTC,75302,13,clonotype81,clonotype81_consensus_1 +TCTGGAATCGCAGGCT-1,True,TCTGGAATCGCAGGCT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-4,TRBC1,True,True,CASSQEISNERLFF,TGTGCCAGCAGCCAAGAGATTTCCAACGAAAGATTATTTTTC,41650,3,clonotype82,clonotype82_consensus_1 +TCTGGAATCGCAGGCT-1,True,TCTGGAATCGCAGGCT-1_contig_2,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,23452,3,clonotype82,None +TCTGGAATCGCAGGCT-1,True,TCTGGAATCGCAGGCT-1_contig_3,True,500,TRA,TRAV6-5,None,TRAJ34,TRAC,True,False,CTTVLWAPLSNTDKVVF,TGTACTACTGTGCTCTGGGCCCCGCTTTCCAATACCGACAAAGTCGTCTTT,13966,2,clonotype82,None +TGAGCCGGTCCTAGCG-1,True,TGAGCCGGTCCTAGCG-1_contig_1,True,501,TRA,TRAV21-DV12,None,TRAJ50,TRAC,True,True,CILRSSSFSKLVF,TGTATCCTGAGGTCCTCCTCCTTCAGCAAGCTGGTGTTT,20390,6,clonotype83,clonotype83_consensus_1 +TGAGCCGGTCCTAGCG-1,True,TGAGCCGGTCCTAGCG-1_contig_2,True,522,TRB,TRBV31,None,TRBJ1-6,TRBC1,True,True,CAWSRGEGTYNSPLYF,TGTGCCTGGAGTCGCGGGGAAGGGACCTATAATTCGCCCCTCTACTTT,57770,10,clonotype83,clonotype83_consensus_2 +TGCCCATAGATATGGT-1,True,TGCCCATAGATATGGT-1_contig_1,True,537,TRA,TRAV3-3,None,TRAJ49,TRAC,True,True,CAVSVDTGYQNFYF,TGCGCAGTCAGTGTGGACACGGGTTACCAGAACTTCTATTTT,25178,8,clonotype84,clonotype84_consensus_3 +TGCCCATAGATATGGT-1,True,TGCCCATAGATATGGT-1_contig_2,True,525,TRB,TRBV31,None,TRBJ2-1,TRBC2,True,True,CAWSLGTGDPEQFF,TGTGCCTGGAGTCTAGGGACTGGGGATCCTGAGCAGTTCTTC,19524,6,clonotype84,clonotype84_consensus_1 +TGCCCATAGATATGGT-1,True,TGCCCATAGATATGGT-1_contig_3,True,556,TRA,TRAV12-1,None,TRAJ22,TRAC,True,True,CALSSGSWQLIF,TGTGCTCTTTCTTCTGGCAGCTGGCAACTCATCTTT,9356,3,clonotype84,clonotype84_consensus_2 +TGCCCATAGATATGGT-1,True,TGCCCATAGATATGGT-1_contig_4,True,537,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,23606,8,clonotype84,None +TGCGCAGAGAGTGAGA-1,True,TGCGCAGAGAGTGAGA-1_contig_1,True,680,TRA,TRAV7-1,None,TRAJ40,TRAC,True,True,CAVSMGTGNYKYVF,TGTGCAGTGAGCATGGGGACAGGAAACTACAAATACGTCTTT,11978,6,clonotype85,clonotype85_consensus_1 +TGCGCAGAGAGTGAGA-1,True,TGCGCAGAGAGTGAGA-1_contig_2,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCCGGACTGGGGGACTCCTATGAACAGTACTTC,11602,5,clonotype85,clonotype85_consensus_2 +TGCGCAGAGAGTGAGA-1,True,TGCGCAGAGAGTGAGA-1_contig_3,True,375,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,53968,12,clonotype85,None +TGCGGGTCAAGCCGTC-1,True,TGCGGGTCAAGCCGTC-1_contig_1,True,572,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGDGGGRGEQYF,TGTGCCAGCGGTGATGGGGGGGGGCGCGGAGAACAGTACTTC,65734,7,clonotype86,clonotype86_consensus_1 +TGGCGCACACCTCGTT-1,True,TGGCGCACACCTCGTT-1_contig_1,True,518,TRB,TRBV13-1,None,TRBJ2-4,TRBC2,True,True,CASSDSGGQNTLYF,TGTGCCAGCAGTGATTCCGGGGGTCAAAACACCTTGTACTTT,58356,5,clonotype87,clonotype87_consensus_1 +TGGCGCACACCTCGTT-1,True,TGGCGCACACCTCGTT-1_contig_2,True,520,TRA,TRAV6-6,None,TRAJ24,TRAC,True,True,CALGGTTASLGKLQF,TGTGCTCTGGGTGGGACAACTGCCAGTTTGGGGAAACTGCAGTTT,19054,2,clonotype87,clonotype87_consensus_2 +TGGCTGGTCACCATAG-1,True,TGGCTGGTCACCATAG-1_contig_1,True,529,TRB,TRBV13-3,None,TRBJ2-4,TRBC2,True,True,CASSDWGGASQNTLYF,TGTGCCAGCAGTGACTGGGGGGGCGCAAGTCAAAACACCTTGTACTTT,45392,9,clonotype88,clonotype88_consensus_1 +TGGCTGGTCACCATAG-1,True,TGGCTGGTCACCATAG-1_contig_2,True,705,TRA,TRAV9-4,None,TRAJ56,TRAC,True,True,CAVSMKGATGGNNKLTF,TGTGCTGTGAGCATGAAGGGGGCTACTGGAGGCAATAATAAGCTGACTTTT,7320,2,clonotype88,clonotype88_consensus_2 +TGGCTGGTCACCATAG-1,True,TGGCTGGTCACCATAG-1_contig_3,True,698,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,12928,5,clonotype88,None +TGGCTGGTCACCATAG-1,True,TGGCTGGTCACCATAG-1_contig_4,True,595,TRA,TRAV19,None,TRAJ52,TRAC,True,False,None,None,5974,1,clonotype88,None +TGGTTCCCAGCTCCGA-1,True,TGGTTCCCAGCTCCGA-1_contig_1,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,22112,2,clonotype1,clonotype1_consensus_1 +TGGTTCCCAGCTCCGA-1,True,TGGTTCCCAGCTCCGA-1_contig_2,True,729,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,16522,3,clonotype1,clonotype1_consensus_2 +TGGTTCCCAGCTCCGA-1,True,TGGTTCCCAGCTCCGA-1_contig_3,True,425,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,38946,2,clonotype1,None +TGTATTCTCAAGGTAA-1,True,TGTATTCTCAAGGTAA-1_contig_1,True,544,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSDDRGDSDYTF,TGTGCCAGCAGCGATGACAGGGGAGACTCCGACTACACCTTC,58570,14,clonotype1,clonotype1_consensus_1 +TGTATTCTCAAGGTAA-1,True,TGTATTCTCAAGGTAA-1_contig_2,True,690,TRA,TRAV14N-3,None,TRAJ32,TRAC,True,True,CAARSYGGSGNKLIF,TGTGCAGCAAGGTCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,16274,7,clonotype1,clonotype1_consensus_2 +TGTATTCTCACCCTCA-1,True,TGTATTCTCACCCTCA-1_contig_1,True,745,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CAVTASSGQKLVF,TGTGCTGTGACGGCTTCAAGTGGCCAGAAGCTGGTTTTT,14940,9,clonotype9,clonotype9_consensus_2 +TGTATTCTCACCCTCA-1,True,TGTATTCTCACCCTCA-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQGGGNTEVFF,TGTGCCAGCAGCCAAGGGGGGGGGAACACAGAAGTCTTCTTT,56408,26,clonotype9,clonotype9_consensus_1 +TGTATTCTCACCCTCA-1,True,TGTATTCTCACCCTCA-1_contig_3,True,731,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,3930,2,clonotype9,None +TTATGCTGTCCAGTGC-1,True,TTATGCTGTCCAGTGC-1_contig_1,True,712,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSMGVERLFF,TGTGCCAGCAGTATGGGGGTCGAAAGATTATTTTTC,20904,9,clonotype89,clonotype89_consensus_2 +TTATGCTGTCCAGTGC-1,True,TTATGCTGTCCAGTGC-1_contig_2,True,524,TRA,TRAV6N-7,None,TRAJ12,TRAC,True,True,CALTTPGGYKVVF,TGTGCTCTGACCACTCCTGGAGGCTATAAAGTGGTCTTT,15784,5,clonotype89,clonotype89_consensus_1 +TTATGCTGTCCAGTGC-1,True,TTATGCTGTCCAGTGC-1_contig_3,True,329,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,7002,1,clonotype89,None +TTATGCTGTCCAGTGC-1,True,TTATGCTGTCCAGTGC-1_contig_4,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,31842,7,clonotype89,None +TTCTCAAAGCTCCTCT-1,True,TTCTCAAAGCTCCTCT-1_contig_1,True,603,TRA,TRAV14D-3-DV8,None,TRAJ45,TRAC,True,True,CAARHTGGADRLTF,TGTGCAGCAAGGCATACAGGAGGTGCAGATAGACTCACCTTT,34520,3,clonotype4,clonotype4_consensus_2 +TTCTCAAAGCTCCTCT-1,True,TTCTCAAAGCTCCTCT-1_contig_2,True,672,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASRKGTGGRDTQYF,TGTGCCAGCAGAAAAGGGACTGGGGGGAGAGACACCCAGTACTTT,5950,1,clonotype4,clonotype4_consensus_1 +TTCTCAAAGCTCCTCT-1,True,TTCTCAAAGCTCCTCT-1_contig_3,True,553,TRB,TRBV10,None,TRBJ2-3,TRBC2,True,False,None,None,37702,3,clonotype4,None +TTGACTTGTTACGGAG-1,True,TTGACTTGTTACGGAG-1_contig_1,True,571,TRB,TRBV1,None,TRBJ1-4,TRBC1,True,True,CTCSAQGVSNERLFF,TGCACCTGCAGTGCACAGGGGGTTTCCAACGAAAGATTATTTTTC,47750,11,clonotype90,clonotype90_consensus_1 +TTGACTTGTTACGGAG-1,True,TTGACTTGTTACGGAG-1_contig_2,True,406,TRB,TRBV13-3,None,TRBJ2-2,TRBC2,True,False,CASSDALGAAGQLYF,TGTGCCAGCAGTGATGCATTGGGGGCGGCCGGGCAGCTCTACTTT,19412,4,clonotype90,None diff --git a/tests/testthat/fixtures/Chariou/h5files/SCAF1715_3_1_filtered_contig_annotations.csv b/tests/testthat/fixtures/Chariou/h5files/SCAF1715_3_1_filtered_contig_annotations.csv new file mode 100644 index 0000000..1d363bb --- /dev/null +++ b/tests/testthat/fixtures/Chariou/h5files/SCAF1715_3_1_filtered_contig_annotations.csv @@ -0,0 +1,142 @@ +barcode,is_cell,contig_id,high_confidence,length,chain,v_gene,d_gene,j_gene,c_gene,full_length,productive,cdr3,cdr3_nt,reads,umis,raw_clonotype_id,raw_consensus_id +AAGTCTGAGTGGTAGC-1,True,AAGTCTGAGTGGTAGC-1_contig_1,True,530,TRA,TRAV16N,None,TRAJ45,TRAC,True,True,CAMREANTGGADRLTF,TGTGCTATGAGAGAGGCTAATACAGGAGGTGCAGATAGACTCACCTTT,18318,5,clonotype1,clonotype1_consensus_1 +AAGTCTGAGTGGTAGC-1,True,AAGTCTGAGTGGTAGC-1_contig_2,True,645,TRB,TRBV2,None,TRBJ1-6,TRBC1,True,True,CASSQDGGYNSPLYF,TGTGCCAGCAGCCAAGATGGGGGCTATAATTCGCCCCTCTACTTT,16650,6,clonotype1,clonotype1_consensus_2 +AAGTCTGAGTGGTAGC-1,True,AAGTCTGAGTGGTAGC-1_contig_3,True,328,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,39518,10,clonotype1,None +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_1,True,570,TRA,TRAV2,None,TRAJ15,TRAC,True,True,CIVTVPYQGGRALIF,TGCATTGTGACTGTCCCCTACCAGGGAGGCAGAGCTCTGATATTT,10830,6,clonotype2,clonotype2_consensus_3 +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_2,True,538,TRA,TRAV6-2,None,TRAJ9,TRAC,True,True,CVRGNMGYKLTF,TGTGTTAGAGGGAACATGGGCTACAAACTTACCTTC,16732,8,clonotype2,clonotype2_consensus_2 +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_3,True,670,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASRDRSYNYAEQFF,TGTGCCAGCAGGGACAGGTCCTATAACTATGCTGAGCAGTTCTTC,25508,13,clonotype2,clonotype2_consensus_1 +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_4,True,505,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,20654,10,clonotype2,None +ACCTTTAAGCTGAAAT-1,True,ACCTTTAAGCTGAAAT-1_contig_5,True,348,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,3984,1,clonotype2,None +ACGGGCTTCCATTCTA-1,True,ACGGGCTTCCATTCTA-1_contig_1,True,567,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-3,TRBC1,True,True,CASGDGNSGNTLYF,TGTGCCAGCGGTGATGGCAATTCTGGAAATACGCTCTATTTT,74284,6,clonotype3,clonotype3_consensus_1 +AGCTCTCCACGAAACG-1,True,AGCTCTCCACGAAACG-1_contig_1,True,492,TRA,TRAV1,None,TRAJ33,TRAC,True,True,CAVRDSNYQLIW,TGTGCTGTGAGGGATAGCAACTATCAGTTGATCTGG,8748,1,clonotype4,clonotype4_consensus_1 +AGCTCTCCACGAAACG-1,True,AGCTCTCCACGAAACG-1_contig_2,True,525,TRB,TRBV13-3,None,TRBJ1-5,TRBC1,True,True,CASSAGTDNQAPLF,TGTGCCAGCAGTGCCGGGACAGACAACCAGGCTCCGCTTTTT,42160,6,clonotype4,clonotype4_consensus_2 +AGCTCTCCACGAAACG-1,True,AGCTCTCCACGAAACG-1_contig_3,True,452,TRB,None,None,TRBJ1-4,TRBC1,False,False,None,None,11306,1,clonotype4,None +AGCTCTCCACGAAACG-1,True,AGCTCTCCACGAAACG-1_contig_4,True,546,TRA,TRAV8D-1,None,TRAJ6,TRAC,True,False,None,None,16050,3,clonotype4,None +AGGGTGAGTCAGCTAT-1,True,AGGGTGAGTCAGCTAT-1_contig_1,True,636,TRA,TRAV5D-4,None,TRAJ6,TRAC,True,True,CAASAGGNYKPTF,TGTGCTGCAAGTGCAGGAGGAAACTACAAACCTACGTTT,23148,3,clonotype5,clonotype5_consensus_1 +AGGGTGAGTCAGCTAT-1,True,AGGGTGAGTCAGCTAT-1_contig_2,True,718,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASKTGGSQNTLYF,TGTGCCAGCAAAACTGGGGGGAGTCAAAACACCTTGTACTTT,56110,2,clonotype5,clonotype5_consensus_2 +ATTACTCCATGCCCGA-1,True,ATTACTCCATGCCCGA-1_contig_1,True,513,TRA,TRAV6-6,None,TRAJ15,TRAC,True,True,CALGDPQGGRALIF,TGTGCTCTGGGTGATCCCCAGGGAGGCAGAGCTCTGATATTT,27020,4,clonotype6,clonotype6_consensus_1 +ATTACTCCATGCCCGA-1,True,ATTACTCCATGCCCGA-1_contig_2,True,643,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,True,CTCSAQGAQGTEVFF,TGCACCTGCAGTGCGCAGGGGGCGCAGGGCACAGAAGTCTTCTTT,52090,7,clonotype6,clonotype6_consensus_2 +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_1,True,586,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSANERLFF,TGTGCCAGCAGTGCCAACGAAAGATTATTTTTC,32168,9,clonotype7,clonotype7_consensus_2 +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_2,True,603,TRA,TRAV12D-2,None,TRAJ49,TRAC,True,True,CALSAPNTGYQNFYF,TGTGCTCTGAGTGCTCCGAACACGGGTTACCAGAACTTCTATTTT,17612,4,clonotype7,clonotype7_consensus_1 +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_3,True,332,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,8526,1,clonotype7,None +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_4,True,571,Multi,TRAV8D-2,None,TRDJ1,TRAC,True,False,CATDVGGRRDTS,TGTGCTACAGACGTGGGGGGGCGGAGGGATACGAGC,9822,3,clonotype7,None +CAAGGCCAGTAGGTGC-1,True,CAAGGCCAGTAGGTGC-1_contig_5,True,372,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,6176,2,clonotype7,None +CACCAGGAGAGACTTA-1,True,CACCAGGAGAGACTTA-1_contig_1,True,511,TRB,TRBV10,None,TRBJ1-2,TRBC1,True,True,CASSRQGGSDYTF,TGTGCCAGCAGCCGACAGGGCGGCTCCGACTACACCTTC,64360,8,clonotype8,clonotype8_consensus_2 +CACCAGGAGAGACTTA-1,True,CACCAGGAGAGACTTA-1_contig_2,True,546,TRA,TRAV8N-2,None,TRAJ34,TRAC,True,True,CATANTDKVVF,TGTGCTACTGCCAATACCGACAAAGTCGTCTTT,8018,2,clonotype8,clonotype8_consensus_1 +CACCAGGGTAAGTAGT-1,True,CACCAGGGTAAGTAGT-1_contig_1,True,569,TRB,TRBV2,None,TRBJ2-5,TRBC2,True,True,CASSQDGTGQDTQYF,TGTGCCAGCAGCCAAGACGGGACTGGACAAGACACCCAGTACTTT,26388,9,clonotype9,clonotype9_consensus_1 +CACCAGGGTAAGTAGT-1,True,CACCAGGGTAAGTAGT-1_contig_2,True,567,TRA,TRAV4-4-DV10,None,TRAJ49,TRAC,True,True,CAAEAGPGYQNFYF,TGTGCTGCTGAGGCAGGGCCGGGTTACCAGAACTTCTATTTT,41438,13,clonotype9,clonotype9_consensus_2 +CACCAGGGTAAGTAGT-1,True,CACCAGGGTAAGTAGT-1_contig_3,True,614,TRB,None,None,TRBJ1-1,TRBC1,False,False,None,None,10066,3,clonotype9,None +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_1,True,600,TRA,TRAV12D-2,None,TRAJ56,TRAC,True,True,CALSSTGGNNKLTF,TGTGCTCTGAGTTCTACTGGAGGCAATAATAAGCTGACTTTT,49126,30,clonotype10,clonotype10_consensus_1 +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_2,True,574,TRB,TRBV12-1,None,TRBJ2-4,TRBC2,True,True,CASSLEGSQNTLYF,TGTGCCAGCTCTCTCGAGGGTAGTCAAAACACCTTGTACTTT,7982,7,clonotype10,clonotype10_consensus_2 +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_3,True,328,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,6266,3,clonotype10,None +CATCAGAGTCTCGTTC-1,True,CATCAGAGTCTCGTTC-1_contig_4,True,369,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,13520,9,clonotype10,None +CATGCCTGTATTCGTG-1,True,CATGCCTGTATTCGTG-1_contig_1,True,580,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-1,TRBC2,True,True,CASGDATGLNYAEQFF,TGTGCCAGCGGTGATGCAACAGGGCTAAACTATGCTGAGCAGTTCTTC,28996,16,clonotype11,clonotype11_consensus_2 +CATGCCTGTATTCGTG-1,True,CATGCCTGTATTCGTG-1_contig_2,True,628,TRA,TRAV3-1,None,TRAJ15,TRAC,True,True,CAVRPFYQGGRALIF,TGCGCAGTCAGGCCCTTCTACCAGGGAGGCAGAGCTCTGATATTT,34032,12,clonotype11,clonotype11_consensus_3 +CATGCCTGTATTCGTG-1,True,CATGCCTGTATTCGTG-1_contig_3,True,570,TRA,TRAV2,None,TRAJ12,TRAC,True,True,CIVTDTGTGGYKVVF,TGCATTGTGACTGACACCGGGACTGGAGGCTATAAAGTGGTCTTT,10140,5,clonotype11,clonotype11_consensus_1 +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_1,True,524,TRA,TRAV6-5,None,TRAJ56,TRAC,True,True,CALSAVTGGNNKLTF,TGTGCTCTGAGTGCCGTAACTGGAGGCAATAATAAGCTGACTTTT,11472,3,clonotype12,clonotype12_consensus_2 +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_2,True,560,TRB,TRBV2,None,TRBJ1-5,TRBC1,True,True,CASSQDYNQAPLF,TGTGCCAGCAGCCAAGATTACAACCAGGCTCCGCTTTTT,10964,2,clonotype12,clonotype12_consensus_1 +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_3,True,341,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,13656,1,clonotype12,None +CCACGGAAGCCTATGT-1,True,CCACGGAAGCCTATGT-1_contig_4,True,362,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,40694,4,clonotype12,None +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSQGLGDSYEQYF,TGTGCCAGCAGCCAAGGACTGGGGGACTCCTATGAACAGTACTTC,32308,10,clonotype13,clonotype13_consensus_2 +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_2,True,606,TRA,TRAV7-4,None,TRAJ42,TRAC,True,True,CAASEHENSGGSNAKLTF,TGTGCAGCTAGTGAGCATGAAAATTCTGGAGGAAGCAATGCAAAGCTAACCTTC,11948,6,clonotype13,clonotype13_consensus_3 +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_3,True,534,TRA,TRAV7-3,None,TRAJ40,TRAC,True,True,CAVSIGTGNYKYVF,TGTGCAGTGAGCATTGGTACAGGAAACTACAAATACGTCTTT,21812,7,clonotype13,clonotype13_consensus_1 +CCCTCCTGTAACGCGA-1,True,CCCTCCTGTAACGCGA-1_contig_4,True,528,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,False,None,None,12054,3,clonotype13,None +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_1,True,520,TRB,TRBV13-3,None,TRBJ1-2,TRBC1,True,True,CASSDAWGPDYTF,TGTGCCAGCAGTGATGCATGGGGCCCCGACTACACCTTC,17728,2,clonotype14,clonotype14_consensus_1 +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_2,True,540,TRA,TRAV11,None,TRAJ18,TRAC,True,True,CVVGDRGSALGRLHF,TGTGTGGTGGGCGATAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,4268,1,clonotype14,clonotype14_consensus_2 +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_3,True,864,TRB,None,None,TRBJ1-1,TRBC1,False,False,None,None,14612,2,clonotype14,None +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_4,True,705,TRA,TRAV7-3,None,TRAJ12,TRAC,True,False,CSKTGGYKVVF,TGCAGTAAGACTGGAGGCTATAAAGTGGTCTTT,2870,1,clonotype14,None +CGCCAAGAGCCACGCT-1,True,CGCCAAGAGCCACGCT-1_contig_5,True,340,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,38948,3,clonotype14,None +CGGTTAAGTAGCGTCC-1,True,CGGTTAAGTAGCGTCC-1_contig_1,True,555,TRA,TRAV8N-2,None,TRAJ32,TRAC,True,True,CATPYGGSGNKLIF,TGTGCTACTCCTTATGGGGGCAGTGGCAACAAGCTCATCTTT,59298,8,clonotype15,clonotype15_consensus_2 +CGGTTAAGTAGCGTCC-1,True,CGGTTAAGTAGCGTCC-1_contig_2,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSQDWGAIYEQYF,TGTGCCAGCAGCCAAGACTGGGGGGCTATATATGAACAGTACTTC,20054,3,clonotype15,clonotype15_consensus_1 +CGTCACTAGATACACA-1,True,CGTCACTAGATACACA-1_contig_1,True,572,TRA,TRAV6-6,None,TRAJ16,TRAC,True,True,CALGATSSGQKLVF,TGTGCTCTGGGTGCAACTTCAAGTGGCCAGAAGCTGGTTTTT,4392,2,clonotype16,clonotype16_consensus_2 +CGTCACTAGATACACA-1,True,CGTCACTAGATACACA-1_contig_2,True,513,TRB,TRBV13-1,None,TRBJ1-5,TRBC1,True,True,CASSVSRDRNQAPLF,TGTGCCAGCAGTGTCTCCCGGGACAGAAACCAGGCTCCGCTTTTT,72618,5,clonotype16,clonotype16_consensus_1 +CGTGTCTAGTGCCAGA-1,True,CGTGTCTAGTGCCAGA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,30426,9,clonotype17,clonotype17_consensus_2 +CGTGTCTAGTGCCAGA-1,True,CGTGTCTAGTGCCAGA-1_contig_2,True,549,TRA,TRAV7-3,None,TRAJ12,TRAC,True,True,CAVSMGTGGYKVVF,TGTGCAGTGAGCATGGGGACTGGAGGCTATAAAGTGGTCTTT,43770,13,clonotype17,clonotype17_consensus_1 +CGTGTCTAGTGCCAGA-1,True,CGTGTCTAGTGCCAGA-1_contig_3,True,758,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,4346,3,clonotype17,None +CTACATTAGGTGGGTT-1,True,CTACATTAGGTGGGTT-1_contig_1,True,538,TRB,TRBV2,None,TRBJ1-2,None,True,True,CASSQRTANSDYTF,TGTGCCAGCAGCCAACGGACAGCAAACTCCGACTACACCTTC,5594,1,clonotype18,clonotype18_consensus_1 +CTACATTAGGTGGGTT-1,True,CTACATTAGGTGGGTT-1_contig_2,True,548,TRA,TRAV9-1,None,TRAJ47,TRAC,True,True,CAVSAKEDYANKMIF,TGTGCTGTGAGCGCGAAGGAGGACTATGCAAACAAGATGATCTTT,24434,5,clonotype18,clonotype18_consensus_2 +CTACATTAGGTGGGTT-1,True,CTACATTAGGTGGGTT-1_contig_3,True,392,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,30556,3,clonotype18,None +CTACATTAGGTGGGTT-1,True,CTACATTAGGTGGGTT-1_contig_4,True,429,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,16218,2,clonotype18,None +CTCGAGGTCACATACG-1,True,CTCGAGGTCACATACG-1_contig_1,True,564,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGDARGDTQYF,TGTGCCAGCGGTGATGCCCGGGGAGACACCCAGTACTTT,58876,29,clonotype19,clonotype19_consensus_2 +CTCGAGGTCACATACG-1,True,CTCGAGGTCACATACG-1_contig_2,True,542,TRA,TRAV6-1,None,TRAJ13,TRAC,True,True,CVLGENSGTYQRF,TGTGTTCTGGGTGAGAATTCTGGGACTTACCAGAGGTTT,14738,4,clonotype19,clonotype19_consensus_1 +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_1,True,568,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-3,TRBC1,True,True,CASGDDNSGNTLYF,TGTGCCAGCGGTGATGATAATTCTGGAAATACGCTCTATTTT,32644,11,clonotype20,clonotype20_consensus_1 +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_2,True,432,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,31900,10,clonotype20,None +CTCGGAGCACAGACAG-1,True,CTCGGAGCACAGACAG-1_contig_3,True,339,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,13178,2,clonotype20,None +CTGGTCTAGTGTACCT-1,True,CTGGTCTAGTGTACCT-1_contig_1,True,648,TRB,TRBV2,None,TRBJ2-7,TRBC2,True,True,CASSQERDNYEQYF,TGTGCCAGCAGCCAAGAAAGGGACAATTATGAACAGTACTTC,31272,9,clonotype21,clonotype21_consensus_2 +CTGGTCTAGTGTACCT-1,True,CTGGTCTAGTGTACCT-1_contig_2,True,533,TRA,TRAV6-6,None,TRAJ34,TRAC,True,True,CALGGANTDKVVF,TGTGCTCTGGGTGGAGCCAATACCGACAAAGTCGTCTTT,46728,9,clonotype21,clonotype21_consensus_1 +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_1,True,598,TRA,TRAV3-1,None,TRAJ4,TRAC,True,True,CAVSPSSGSFNKLTF,TGCGCAGTCAGTCCCTCATCTGGTAGCTTCAATAAGTTGACCTTT,7212,4,clonotype22,clonotype22_consensus_1 +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCTGGGACAGGGAACACAGAAGTCTTCTTT,49116,17,clonotype22,clonotype22_consensus_2 +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_3,True,473,TRA,TRAV9-4,None,TRAJ17,TRAC,True,False,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,3080,1,clonotype22,None +CTTAACTTCTTCAACT-1,True,CTTAACTTCTTCAACT-1_contig_4,True,405,TRB,None,None,TRBJ1-4,TRBC1,False,False,None,None,15812,5,clonotype22,None +GACGTGCCACAGGTTT-1,True,GACGTGCCACAGGTTT-1_contig_1,True,524,TRA,TRAV6-4,None,TRAJ13,TRAC,True,True,CALVGTNSGTYQRF,TGTGCTCTGGTTGGTACAAATTCTGGGACTTACCAGAGGTTT,10990,1,clonotype23,clonotype23_consensus_1 +GACGTGCCACAGGTTT-1,True,GACGTGCCACAGGTTT-1_contig_2,True,568,TRB,TRBV1,None,TRBJ2-2,TRBC2,True,True,CTCSADRDTGQLYF,TGCACCTGCAGTGCAGACAGGGACACCGGGCAGCTCTACTTT,53964,5,clonotype23,clonotype23_consensus_2 +GACGTGCCACAGGTTT-1,True,GACGTGCCACAGGTTT-1_contig_3,True,539,TRA,TRAV3-3,None,TRAJ37,TRAC,True,False,CAVSEGQAILENSSLGW,TGCGCAGTCAGTGAGGGGCAGGCAATACTAGAAAACTCATCTTTGGGCTGG,13374,1,clonotype23,None +GACGTTAAGTGTTGAA-1,True,GACGTTAAGTGTTGAA-1_contig_1,True,601,TRA,TRAV8D-2,None,TRAJ52,TRAC,True,True,CATDPFGGANTGKLTF,TGTGCTACAGATCCCTTCGGGGGAGCTAACACTGGAAAGCTCACGTTT,4660,1,clonotype24,clonotype24_consensus_1 +GACGTTAAGTGTTGAA-1,True,GACGTTAAGTGTTGAA-1_contig_2,True,704,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSSNENTEVFF,TGTGCCAGCAGTTCGAACGAAAACACAGAAGTCTTCTTT,68202,14,clonotype24,clonotype24_consensus_2 +GATCGATGTTAAGACA-1,True,GATCGATGTTAAGACA-1_contig_1,True,569,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-3,TRBC1,True,True,CASGDSGNTLYF,TGTGCCAGCGGTGATTCTGGAAATACGCTCTATTTT,10804,4,clonotype25,clonotype25_consensus_1 +GATCGATGTTAAGACA-1,True,GATCGATGTTAAGACA-1_contig_2,True,305,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,67442,6,clonotype25,None +GATCTAGGTTCGGCAC-1,True,GATCTAGGTTCGGCAC-1_contig_1,True,538,TRA,TRAV6-6,None,TRAJ31,TRAC,True,True,CALSANNNNRIFF,TGTGCTCTGAGTGCGAATAACAATAACAGAATCTTCTTT,22644,9,clonotype26,clonotype26_consensus_1 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_1,True,524,TRB,TRBV13-1,None,TRBJ2-5,TRBC2,True,True,CASSDGLGFNQDTQYF,TGTGCCAGCAGTGATGGACTGGGGTTTAACCAAGACACCCAGTACTTT,16152,3,clonotype27,clonotype27_consensus_2 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_2,True,530,TRA,TRAV6N-7,None,TRAJ22,TRAC,True,True,CALSDSSGSWQLIF,TGTGCTCTGAGTGACTCTTCTGGCAGCTGGCAACTCATCTTT,10344,2,clonotype27,clonotype27_consensus_1 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_3,True,540,TRA,TRAV13-1,None,TRAJ22,TRAC,True,True,CAISGSWQLIF,TGTGCTATTTCTGGCAGCTGGCAACTCATCTTT,31908,7,clonotype27,clonotype27_consensus_3 +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_4,True,433,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,4944,1,clonotype27,None +GATCTAGTCGTCTGAA-1,True,GATCTAGTCGTCTGAA-1_contig_5,True,368,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,13264,1,clonotype27,None +GCACATAGTACTCTCC-1,True,GCACATAGTACTCTCC-1_contig_1,True,557,TRA,TRAV3-3,None,TRAJ47,TRAC,True,True,CAGDYANKMIF,TGCGCGGGGGACTATGCAAACAAGATGATCTTT,24500,8,clonotype28,clonotype28_consensus_2 +GCACATAGTACTCTCC-1,True,GCACATAGTACTCTCC-1_contig_2,True,526,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGARVGVGQYF,TGTGGTGCTAGGGTTGGGGTAGGACAGTACTTC,33672,10,clonotype28,clonotype28_consensus_1 +GCACATAGTACTCTCC-1,True,GCACATAGTACTCTCC-1_contig_3,True,576,TRA,TRAV13-1,None,TRAJ50,TRAC,True,False,None,None,15688,3,clonotype28,None +GCATGATGTCGCATAT-1,True,GCATGATGTCGCATAT-1_contig_1,True,631,TRA,TRAV5D-4,None,TRAJ57,TRAC,True,True,CAASDQGGSAKLIF,TGTGCTGCAAGTGATCAAGGAGGGTCTGCGAAGCTCATCTTT,37846,8,clonotype29,clonotype29_consensus_1 +GCCAAATGTCACCTAA-1,True,GCCAAATGTCACCTAA-1_contig_1,True,541,TRB,TRBV20,None,TRBJ1-5,TRBC1,True,True,CGAGQGAKAPLF,TGTGGTGCTGGACAGGGGGCGAAGGCTCCGCTTTTT,64196,6,clonotype30,clonotype30_consensus_1 +GCGCCAAAGCGTTCCG-1,True,GCGCCAAAGCGTTCCG-1_contig_1,True,524,TRA,TRAV16N,None,TRAJ37,TRAC,True,True,CAMRGITGNTRKLIF,TGTGCTATGAGAGGTATAACAGGCAATACTAGAAAACTCATCTTT,23390,1,clonotype31,clonotype31_consensus_1 +GCGCCAAAGCGTTCCG-1,True,GCGCCAAAGCGTTCCG-1_contig_2,True,682,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASSITGPNYAEQFF,TGTGCCAGCAGTATAACTGGACCTAACTATGCTGAGCAGTTCTTC,55252,5,clonotype31,clonotype31_consensus_2 +GGAACTTCATCTGGTA-1,True,GGAACTTCATCTGGTA-1_contig_1,True,672,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASTWGEAVFF,TGTGCCAGCACCTGGGGTGAGGCAGTCTTCTTT,61414,13,clonotype32,clonotype32_consensus_2 +GGAACTTCATCTGGTA-1,True,GGAACTTCATCTGGTA-1_contig_2,True,537,TRA,TRAV12-3,None,TRAJ39,TRAC,True,True,CALRNNNAGAKLTF,TGTGCTTTGAGGAATAATAATGCAGGTGCCAAGCTCACATTC,2326,2,clonotype32,clonotype32_consensus_1 +GGAACTTCATCTGGTA-1,True,GGAACTTCATCTGGTA-1_contig_3,True,483,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,14562,2,clonotype32,None +GGAATAAGTTGTCGCG-1,True,GGAATAAGTTGTCGCG-1_contig_1,True,602,TRB,TRBV3,None,TRBJ1-2,TRBC1,True,True,CASSRDDANSDYTF,TGTGCCAGCAGCCGGGACGATGCAAACTCCGACTACACCTTC,76576,13,clonotype33,clonotype33_consensus_1 +GGAATAAGTTGTCGCG-1,True,GGAATAAGTTGTCGCG-1_contig_2,True,596,TRA,TRAV7-4,None,TRAJ56,TRAC,True,False,CAGGRLLE,TGTGCAGGAGGGAGGCTACTGGAG,590,1,clonotype33,None +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_1,True,515,TRA,TRAV6-5,None,TRAJ32,TRAC,True,True,CALSHYGGSGNKLIF,TGTGCTCTGAGTCATTATGGGGGCAGTGGCAACAAGCTCATCTTT,16344,2,clonotype34,clonotype34_consensus_1 +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_2,True,502,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQDFPEEVFF,TGTGCCAGCAGCCAAGATTTCCCAGAAGAAGTCTTCTTT,40442,5,clonotype34,clonotype34_consensus_2 +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_3,True,542,TRA,TRAV5D-4,None,TRAJ49,TRAC,True,False,None,None,5878,1,clonotype34,None +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_4,True,344,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,14718,1,clonotype34,None +GGACAGATCTCGAGTA-1,True,GGACAGATCTCGAGTA-1_contig_5,True,586,TRB,TRBV13-1,None,TRBJ1-1,TRBC1,True,False,None,None,1530,1,clonotype34,None +GGCTGGTGTCCTCCAT-1,True,GGCTGGTGTCCTCCAT-1_contig_1,True,531,TRA,TRAV6-6,None,TRAJ18,TRAC,True,True,CALGDRGSALGRLHF,TGTGCTCTGGGTGATAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,36546,3,clonotype35,clonotype35_consensus_1 +GGCTGGTGTCCTCCAT-1,True,GGCTGGTGTCCTCCAT-1_contig_2,True,409,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,42384,2,clonotype35,None +GGGCATCCAATAAGCA-1,True,GGGCATCCAATAAGCA-1_contig_1,True,511,TRA,TRAV4-2,None,TRAJ39,TRAC,True,True,CAAFNAGAKLTF,TGTGCTGCCTTTAATGCAGGTGCCAAGCTCACATTC,24674,9,clonotype36,clonotype36_consensus_2 +GGGCATCCAATAAGCA-1,True,GGGCATCCAATAAGCA-1_contig_2,True,660,TRB,TRBV19,None,TRBJ2-7,TRBC2,True,True,CASSMGGSSYEQYF,TGTGCCAGCAGTATGGGGGGGAGCTCCTATGAACAGTACTTC,28476,6,clonotype36,clonotype36_consensus_3 +GGGCATCCAATAAGCA-1,True,GGGCATCCAATAAGCA-1_contig_3,True,543,TRB,TRBV20,None,TRBJ1-4,TRBC1,True,True,CGAPRTGGDERLFF,TGTGGTGCCCCCCGGACAGGGGGCGACGAAAGATTATTTTTC,23282,4,clonotype36,clonotype36_consensus_1 +GGTGCGTTCAGCTCTC-1,True,GGTGCGTTCAGCTCTC-1_contig_1,True,564,TRA,TRAV5-1,None,TRAJ4,TRAC,True,True,CSASIGLLSGSFNKLTF,TGCTCAGCAAGTATTGGATTGTTATCTGGTAGCTTCAATAAGTTGACCTTT,14122,2,clonotype37,clonotype37_consensus_2 +GGTGCGTTCAGCTCTC-1,True,GGTGCGTTCAGCTCTC-1_contig_2,True,544,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGASLFRDWGLSYEQYF,TGTGGTGCTAGTCTCTTCCGGGACTGGGGCCTCTCCTATGAACAGTACTTC,31838,5,clonotype37,clonotype37_consensus_1 +GGTGCGTTCAGCTCTC-1,True,GGTGCGTTCAGCTCTC-1_contig_3,True,557,TRA,TRAV6-6,None,TRAJ17,TRAC,True,False,None,None,31062,3,clonotype37,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_1,True,710,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSIDRVGSERLFF,TGTGCCAGCAGTATAGACAGGGTAGGATCCGAAAGATTATTTTTC,23014,16,clonotype38,clonotype38_consensus_1 +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_2,True,567,TRA,TRAV2,None,TRAJ30,TRAC,True,True,CIVTDLTNAYKVIF,TGCATTGTGACTGACCTCACAAATGCTTACAAAGTCATCTTT,17552,11,clonotype38,clonotype38_consensus_2 +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_3,True,401,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,5264,1,clonotype38,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_4,True,324,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,4612,2,clonotype38,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_5,True,345,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,5806,2,clonotype38,None +GTACTCCCACCTCGGA-1,True,GTACTCCCACCTCGGA-1_contig_6,True,361,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,22048,7,clonotype38,None +GTGAAGGTCTGTCAAG-1,True,GTGAAGGTCTGTCAAG-1_contig_1,True,571,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGDADSSYEQYF,TGTGCCAGCGGTGATGCGGACAGCTCCTATGAACAGTACTTC,33696,2,clonotype39,clonotype39_consensus_1 +GTGAAGGTCTGTCAAG-1,True,GTGAAGGTCTGTCAAG-1_contig_2,True,369,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,12866,6,clonotype39,None +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_1,True,510,TRA,TRAV6-5,None,TRAJ5,TRAC,True,True,CALGDTQVVGQLTF,TGTGCTCTGGGTGACACACAGGTTGTGGGGCAGCTCACTTTC,9862,10,clonotype40,clonotype40_consensus_1 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_2,True,415,TRB,TRBV31,None,TRBJ1-3,None,True,True,CAWRGGGGNTLYF,TGTGCCTGGCGGGGGGGGGGAGGAAATACGCTCTATTTT,15148,13,clonotype40,clonotype40_consensus_2 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_3,True,414,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,49186,29,clonotype40,None +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_4,True,507,TRA,TRAV12-1,None,TRAJ11,TRAC,True,False,CPVLLCSNSGYNKLTF,TGCCCTGTACTACTGTGCTCTAACTCGGGATACAACAAACTCACTTTT,3054,2,clonotype40,None +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_1,True,588,TRA,TRAV7-4,None,TRAJ9,TRAC,True,True,CAARGRGYKLTF,TGTGCAGCTAGGGGGAGGGGCTACAAACTTACCTTC,8002,3,clonotype41,clonotype41_consensus_1 +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_2,True,560,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSAGTGGERLFF,TGTGCCAGCAGTGCCGGGACGGGCGGCGAAAGATTATTTTTC,31080,10,clonotype41,clonotype41_consensus_2 +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_3,True,336,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,7710,3,clonotype41,None +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_4,True,679,TRA,TRAV6-2,None,TRAJ39,TRAC,True,False,CVLGDRYRKLQIRLWSRYQTEGYST,TGTGTTCTGGGTGATAGGTACAGGAAACTACAAATACGTCTTTGGAGCAGGTACCAGACTGAAGGTTATAGCACC,2238,1,clonotype41,None +GTTTCTATCTAACTGG-1,True,GTTTCTATCTAACTGG-1_contig_5,True,326,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,26900,5,clonotype41,None +TATGCCCAGATATGCA-1,True,TATGCCCAGATATGCA-1_contig_1,True,584,TRA,TRAV6-2,None,TRAJ26,TRAC,True,True,CVLGDQNYAQGLTF,TGTGTTCTGGGTGATCAAAACTATGCCCAGGGATTAACCTTC,75622,5,clonotype42,clonotype42_consensus_2 +TATGCCCAGATATGCA-1,True,TATGCCCAGATATGCA-1_contig_2,True,714,TRB,TRBV2,None,TRBJ2-7,TRBC2,True,True,CASSHPGVSSYEQYF,TGTGCCAGCAGCCATCCCGGGGTTAGCTCCTATGAACAGTACTTC,3310,1,clonotype42,clonotype42_consensus_1 +TCAGCAACAAGGTTCT-1,True,TCAGCAACAAGGTTCT-1_contig_1,True,538,TRA,TRAV6-2,None,TRAJ11,TRAC,True,True,CVLGDSGYNKLTF,TGTGTTCTGGGTGACTCGGGATACAACAAACTCACTTTT,51778,7,clonotype43,clonotype43_consensus_1 +TCAGCAACAAGGTTCT-1,True,TCAGCAACAAGGTTCT-1_contig_2,True,561,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGGGTGEAETLYF,TGTGCCAGCGGTGGTGGGACAGGGGAGGCAGAAACGCTGTATTTT,25892,4,clonotype43,clonotype43_consensus_2 +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_1,True,528,TRA,TRAV14-1,None,TRAJ5,TRAC,True,True,CAAGTQVVGQLTF,TGTGCAGCCGGGACACAGGTTGTGGGGCAGCTCACTTTC,31486,5,clonotype44,clonotype44_consensus_2 +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_2,True,707,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASRTGGSNERLFF,TGTGCCAGCAGAACAGGGGGCTCCAACGAAAGATTATTTTTC,8964,2,clonotype44,clonotype44_consensus_1 +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_3,True,473,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,22010,2,clonotype44,None +TGGTTAGGTGTCTGAT-1,True,TGGTTAGGTGTCTGAT-1_contig_4,True,431,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,13840,1,clonotype44,None +TTAGGACGTTACGTCA-1,True,TTAGGACGTTACGTCA-1_contig_1,True,514,TRA,TRAV4-2,None,TRAJ45,TRAC,True,True,CAADTGGADRLTF,TGTGCTGCGGATACAGGAGGTGCAGATAGACTCACCTTT,15494,3,clonotype45,clonotype45_consensus_1 +TTAGGACGTTACGTCA-1,True,TTAGGACGTTACGTCA-1_contig_2,True,739,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGARRNYEQYF,TGTGGTGCTAGAAGGAATTATGAACAGTACTTC,51036,8,clonotype45,clonotype45_consensus_2 +TTAGGACGTTACGTCA-1,True,TTAGGACGTTACGTCA-1_contig_3,True,544,TRA,TRAV8D-2,None,TRAJ31,TRAC,True,False,None,None,7462,1,clonotype45,None +TTCTACAGTCTTGTCC-1,True,TTCTACAGTCTTGTCC-1_contig_1,True,648,TRB,TRBV2,None,TRBJ2-4,TRBC2,True,True,CASSQEDAGRQNTLYF,TGTGCCAGCAGCCAAGAAGATGCTGGGCGTCAAAACACCTTGTACTTT,46314,3,clonotype46,clonotype46_consensus_1 +TTCTACAGTCTTGTCC-1,True,TTCTACAGTCTTGTCC-1_contig_2,True,599,TRA,TRAV19,None,TRAJ17,TRAC,True,True,CAAGRLTNSAGNKLTF,TGCGCAGCAGGGCGGTTGACTAACAGTGCAGGGAACAAGCTAACTTTT,30142,4,clonotype46,clonotype46_consensus_2 +TTCTACAGTCTTGTCC-1,True,TTCTACAGTCTTGTCC-1_contig_3,True,436,TRB,TRBV5,None,TRBJ1-1,None,True,False,CASSPGTGNTEVFF,TGTGCCAGCAGCCCTGGGACAGGGAACACAGAAGTCTTCTTT,4,2,clonotype46,None +TTCTTAGGTCAGTGGA-1,True,TTCTTAGGTCAGTGGA-1_contig_1,True,567,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGARDLGGGGYEQYF,TGTGGTGCTAGGGATCTGGGGGGAGGCGGCTATGAACAGTACTTC,36732,6,clonotype47,clonotype47_consensus_1 +TTCTTAGGTCAGTGGA-1,True,TTCTTAGGTCAGTGGA-1_contig_2,True,632,TRA,TRAV5D-4,None,TRAJ27,TRAC,True,True,CAASRNTNTGKLTF,TGTGCTGCAAGCAGGAACACCAATACAGGCAAATTAACCTTT,36896,5,clonotype47,clonotype47_consensus_2 +TTCTTAGGTCAGTGGA-1,True,TTCTTAGGTCAGTGGA-1_contig_3,True,416,TRA,None,None,TRAJ26,TRAC,False,False,None,None,4894,1,clonotype47,None diff --git a/tests/testthat/fixtures/Chariou/h5files/SCAF1716_4_1_filtered_contig_annotations.csv b/tests/testthat/fixtures/Chariou/h5files/SCAF1716_4_1_filtered_contig_annotations.csv new file mode 100644 index 0000000..527c02a --- /dev/null +++ b/tests/testthat/fixtures/Chariou/h5files/SCAF1716_4_1_filtered_contig_annotations.csv @@ -0,0 +1,478 @@ +barcode,is_cell,contig_id,high_confidence,length,chain,v_gene,d_gene,j_gene,c_gene,full_length,productive,cdr3,cdr3_nt,reads,umis,raw_clonotype_id,raw_consensus_id +AAACGGGCAGTAACGG-1,True,AAACGGGCAGTAACGG-1_contig_1,True,714,TRB,TRBV2,None,TRBJ1-1,TRBC1,True,True,CASSQEEGANTEVFF,TGTGCCAGCAGCCAAGAGGAGGGTGCAAACACAGAAGTCTTCTTT,21738,6,clonotype6,clonotype6_consensus_2 +AAACGGGCAGTAACGG-1,True,AAACGGGCAGTAACGG-1_contig_2,True,576,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCCGGGCAAATGCTTACAAAGTCATCTTT,28238,6,clonotype6,clonotype6_consensus_1 +AAACGGGCAGTAACGG-1,True,AAACGGGCAGTAACGG-1_contig_3,True,410,TRB,None,None,TRBJ2-4,TRBC2,False,False,None,None,4260,3,clonotype6,None +AAACGGGCAGTAACGG-1,True,AAACGGGCAGTAACGG-1_contig_4,True,349,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,23282,8,clonotype6,None +AAACGGGGTCTGGAGA-1,True,AAACGGGGTCTGGAGA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,11582,3,clonotype7,clonotype7_consensus_1 +AAACGGGGTCTGGAGA-1,True,AAACGGGGTCTGGAGA-1_contig_2,True,435,TRA,TRAV9-4,None,TRAJ17,TRAC,True,False,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,21132,2,clonotype7,None +AAACGGGGTCTGGAGA-1,True,AAACGGGGTCTGGAGA-1_contig_3,True,447,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,28844,3,clonotype7,None +AAACGGGGTCTGGAGA-1,True,AAACGGGGTCTGGAGA-1_contig_4,True,320,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,2242,1,clonotype7,None +AAACGGGGTCTGGAGA-1,True,AAACGGGGTCTGGAGA-1_contig_5,True,342,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,13278,2,clonotype7,None +AAAGATGGTGTGACGA-1,True,AAAGATGGTGTGACGA-1_contig_1,True,550,TRB,TRBV31,None,TRBJ2-7,TRBC2,True,True,CAWSLRSYEQYF,TGTGCCTGGAGTCTACGCTCCTATGAACAGTACTTC,45190,13,clonotype25,clonotype25_consensus_1 +AAAGATGGTGTGACGA-1,True,AAAGATGGTGTGACGA-1_contig_2,True,565,TRA,TRAV14D-1,None,TRAJ42,TRAC,True,True,CAASRGGGSNAKLTF,TGTGCAGCAAGTAGGGGGGGAGGAAGCAATGCAAAGCTAACCTTC,5400,3,clonotype25,clonotype25_consensus_2 +AAAGATGGTGTGACGA-1,True,AAAGATGGTGTGACGA-1_contig_3,True,397,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,24024,6,clonotype25,None +AAATGCCCAAGTACCT-1,True,AAATGCCCAAGTACCT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSVGQGNTEVFF,TGTGCCAGCAGCGTCGGACAGGGAAACACAGAAGTCTTCTTT,60994,15,clonotype14,clonotype14_consensus_1 +AAATGCCCAAGTACCT-1,True,AAATGCCCAAGTACCT-1_contig_2,True,723,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CAVSTSSGQKLVF,TGTGCTGTGAGCACTTCAAGTGGCCAGAAGCTGGTTTTT,15780,4,clonotype14,clonotype14_consensus_2 +AAATGCCCAATAACGA-1,True,AAATGCCCAATAACGA-1_contig_1,True,561,TRB,TRBV13-3,None,TRBJ2-1,TRBC2,True,True,CASKLTGGNYAEQFF,TGTGCCAGCAAGCTGACTGGGGGTAACTATGCTGAGCAGTTCTTC,45318,4,clonotype26,clonotype26_consensus_3 +AAATGCCCAATAACGA-1,True,AAATGCCCAATAACGA-1_contig_2,True,732,TRA,TRAV9D-2,None,TRAJ48,TRAC,True,True,CAVSMDYGNEKITF,TGTGCTGTGAGCATGGACTATGGAAATGAGAAAATAACTTTT,13394,2,clonotype26,clonotype26_consensus_2 +AAATGCCCAATAACGA-1,True,AAATGCCCAATAACGA-1_contig_3,True,549,TRA,TRAV16N,None,TRAJ53,TRAC,True,True,CAMREDLLRGGSNYKLTF,TGTGCTATGAGAGAGGACCTCCTCCGTGGAGGCAGCAATTACAAACTGACATTT,18750,2,clonotype26,clonotype26_consensus_1 +AACGTTGGTAGTACCT-1,True,AACGTTGGTAGTACCT-1_contig_1,True,515,TRB,TRBV13-1,None,TRBJ1-1,TRBC1,True,True,CASSSLGDTEVFF,TGTGCCAGCAGTTCGTTGGGGGACACAGAAGTCTTCTTT,62126,10,clonotype27,clonotype27_consensus_1 +AACGTTGGTAGTACCT-1,True,AACGTTGGTAGTACCT-1_contig_2,True,731,TRA,TRAV3-1,None,TRAJ30,TRAC,True,False,CTSAQSVKVIF,TGTACTTCTGCGCAGTCAGTGAAAGTCATCTTT,11230,2,clonotype27,None +AAGACCTCAGGGAGAG-1,True,AAGACCTCAGGGAGAG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGAAACACAGAAGTCTTCTTT,6816,3,clonotype28,clonotype28_consensus_1 +AAGACCTCAGGGAGAG-1,True,AAGACCTCAGGGAGAG-1_contig_2,True,636,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,68476,15,clonotype28,None +AAGCCGCGTAGAGTGC-1,True,AAGCCGCGTAGAGTGC-1_contig_1,True,546,TRA,TRAV7D-3,None,TRAJ26,TRAC,True,True,CAVSLNYAQGLTF,TGTGCAGTGAGCCTCAACTATGCCCAGGGATTAACCTTC,20840,5,clonotype15,clonotype15_consensus_1 +AAGCCGCGTAGAGTGC-1,True,AAGCCGCGTAGAGTGC-1_contig_2,True,558,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASSAPGLGSYEQYF,TGTGCCAGCAGTGCCCCGGGACTGGGGTCCTATGAACAGTACTTC,55528,13,clonotype15,clonotype15_consensus_2 +AAGGAGCAGACAAAGG-1,True,AAGGAGCAGACAAAGG-1_contig_1,True,594,TRA,TRAV7D-4,None,TRAJ40,TRAC,True,True,CAASEGTGNYKYVF,TGTGCAGCTAGTGAAGGTACAGGAAACTACAAATACGTCTTT,55564,7,clonotype16,clonotype16_consensus_2 +AAGGAGCAGACAAAGG-1,True,AAGGAGCAGACAAAGG-1_contig_2,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCAGGACTGGGGGACTCCTATGAACAGTACTTC,3742,1,clonotype16,clonotype16_consensus_1 +AAGGAGCAGACAAAGG-1,True,AAGGAGCAGACAAAGG-1_contig_3,True,510,TRA,TRAV13D-2,None,TRAJ31,TRAC,True,False,None,None,18872,4,clonotype16,None +AAGGTTCCAGCATACT-1,True,AAGGTTCCAGCATACT-1_contig_1,True,544,TRB,TRBV13-3,None,TRBJ1-3,TRBC1,True,True,CASSGDRGGNTLYF,TGTGCCAGCAGTGGGGACAGGGGTGGAAATACGCTCTATTTT,22572,10,clonotype8,clonotype8_consensus_1 +AAGGTTCCAGCATACT-1,True,AAGGTTCCAGCATACT-1_contig_2,True,516,TRB,TRBV17,None,TRBJ1-6,TRBC1,True,True,CGVQDNSPLYF,TGTGGGGTACAGGATAATTCGCCCCTCTACTTT,38134,20,clonotype8,clonotype8_consensus_3 +AAGGTTCCAGCATACT-1,True,AAGGTTCCAGCATACT-1_contig_3,True,530,TRA,TRAV16N,None,TRAJ56,TRAC,True,True,CAMREGPGGNNKLTF,TGTGCTATGAGAGAGGGACCTGGAGGCAATAATAAGCTGACTTTT,6254,2,clonotype8,clonotype8_consensus_2 +AAGGTTCCAGCATACT-1,True,AAGGTTCCAGCATACT-1_contig_4,True,364,TRA,TRAV17,None,TRAJ56,TRAC,True,False,None,None,8806,3,clonotype8,None +AATCGGTAGAAGGGTA-1,True,AATCGGTAGAAGGGTA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,34280,21,clonotype2,clonotype2_consensus_2 +AATCGGTAGAAGGGTA-1,True,AATCGGTAGAAGGGTA-1_contig_2,True,669,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,12154,7,clonotype2,clonotype2_consensus_1 +AATCGGTAGAAGGGTA-1,True,AATCGGTAGAAGGGTA-1_contig_3,True,318,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,26078,10,clonotype2,None +AATCGGTAGAAGGGTA-1,True,AATCGGTAGAAGGGTA-1_contig_4,True,319,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,3912,1,clonotype2,None +AATCGGTTCCACGACG-1,True,AATCGGTTCCACGACG-1_contig_1,True,534,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,29406,2,clonotype7,clonotype7_consensus_1 +AATCGGTTCCACGACG-1,True,AATCGGTTCCACGACG-1_contig_2,True,361,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,41102,3,clonotype7,None +ACACCAAGTTCTGGTA-1,True,ACACCAAGTTCTGGTA-1_contig_1,True,672,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,12668,2,clonotype17,clonotype17_consensus_1 +ACACCAAGTTCTGGTA-1,True,ACACCAAGTTCTGGTA-1_contig_2,True,403,TRA,TRAV6-6,None,TRAJ45,TRAC,True,False,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,19680,1,clonotype17,None +ACACCAAGTTCTGGTA-1,True,ACACCAAGTTCTGGTA-1_contig_3,True,328,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,39416,3,clonotype17,None +ACACTGAAGGCCCTCA-1,True,ACACTGAAGGCCCTCA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,62836,25,clonotype9,clonotype9_consensus_2 +ACACTGAAGGCCCTCA-1,True,ACACTGAAGGCCCTCA-1_contig_2,True,731,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,5352,2,clonotype9,clonotype9_consensus_1 +ACACTGAAGGCCCTCA-1,True,ACACTGAAGGCCCTCA-1_contig_3,True,428,TRA,TRAV9-4,None,TRAJ17,TRAC,True,False,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,4936,1,clonotype9,None +ACCAGTACACGAAACG-1,True,ACCAGTACACGAAACG-1_contig_1,True,577,TRA,TRAV6-6,None,TRAJ11,TRAC,True,True,CALGAPDSGYNKLTF,TGTGCTCTGGGTGCCCCCGACTCGGGATACAACAAACTCACTTTT,19298,3,clonotype29,clonotype29_consensus_2 +ACCAGTACACGAAACG-1,True,ACCAGTACACGAAACG-1_contig_2,True,554,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-5,TRBC1,True,True,CASGDWAPLF,TGTGCCAGCGGTGATTGGGCTCCGCTTTTT,46552,4,clonotype29,clonotype29_consensus_1 +ACCCACTGTCAATGTC-1,True,ACCCACTGTCAATGTC-1_contig_1,True,521,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSDAGTGGYEQYF,TGTGCCAGCAGTGATGCCGGGACTGGGGGGTATGAACAGTACTTC,69384,15,clonotype30,clonotype30_consensus_2 +ACCCACTGTCAATGTC-1,True,ACCCACTGTCAATGTC-1_contig_2,True,591,TRA,TRAV7-4,None,TRAJ9,TRAC,True,True,CAASEDMGYKLTF,TGTGCAGCTAGTGAGGACATGGGCTACAAACTTACCTTC,6914,3,clonotype30,clonotype30_consensus_1 +ACGAGCCGTACAGACG-1,True,ACGAGCCGTACAGACG-1_contig_1,True,517,TRB,TRBV14,None,TRBJ1-1,TRBC1,True,True,CASSFGTVTEVFF,TGTGCCAGCAGTTTTGGGACCGTCACAGAAGTCTTCTTT,22562,14,clonotype18,clonotype18_consensus_1 +ACGAGCCGTACAGACG-1,True,ACGAGCCGTACAGACG-1_contig_2,True,362,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,30554,14,clonotype18,None +ACGAGCCGTACAGACG-1,True,ACGAGCCGTACAGACG-1_contig_3,True,504,TRA,TRAV12-3,None,TRAJ31,TRAC,True,False,CPVLLCF,TGCCCTGTACTACTGTGCTTT,1750,1,clonotype18,None +ACGAGCCGTACAGACG-1,True,ACGAGCCGTACAGACG-1_contig_4,True,570,Multi,TRDV1,None,TRAJ17,TRAC,True,False,CGGKEARAGNKLTF,TGTGGAGGGAAAGAGGCCCGTGCAGGGAACAAGCTAACTTTT,20488,8,clonotype18,None +ACGATGTTCGTGTAGT-1,True,ACGATGTTCGTGTAGT-1_contig_1,True,525,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,29780,5,clonotype31,clonotype31_consensus_1 +ACGATGTTCGTGTAGT-1,True,ACGATGTTCGTGTAGT-1_contig_2,True,731,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,False,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,5860,4,clonotype31,None +ACGCAGCAGATACACA-1,True,ACGCAGCAGATACACA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQGQGNTEVFF,TGTGCCAGCAGCCAGGGACAGGGGAACACAGAAGTCTTCTTT,27454,13,clonotype32,clonotype32_consensus_1 +ACGCAGCAGATACACA-1,True,ACGCAGCAGATACACA-1_contig_2,True,669,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CALSASSGQKLVF,TGTGCTCTGAGCGCTTCAAGTGGCCAGAAGCTGGTTTTT,5888,3,clonotype32,clonotype32_consensus_2 +ACGCAGCAGATACACA-1,True,ACGCAGCAGATACACA-1_contig_3,True,673,TRB,TRBV20,None,TRBJ1-1,TRBC1,True,False,None,None,13136,8,clonotype32,None +ACGCAGCAGATACACA-1,True,ACGCAGCAGATACACA-1_contig_4,True,567,TRA,TRAV3-3,None,TRAJ40,TRAC,True,False,None,None,29222,15,clonotype32,None +ACGGGTCAGAGTACAT-1,True,ACGGGTCAGAGTACAT-1_contig_1,True,721,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSIGGASNERLFF,TGTGCCAGCAGTATAGGGGGGGCGTCCAACGAAAGATTATTTTTC,25348,16,clonotype10,clonotype10_consensus_2 +ACGGGTCAGAGTACAT-1,True,ACGGGTCAGAGTACAT-1_contig_2,True,603,TRA,TRAV13-1,None,TRAJ53,TRAC,True,True,CAILSGGSNYKLTF,TGTGCTATCCTCAGTGGAGGCAGCAATTACAAACTGACATTT,21974,12,clonotype10,clonotype10_consensus_1 +ACGGGTCAGAGTACAT-1,True,ACGGGTCAGAGTACAT-1_contig_3,True,430,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,14014,4,clonotype10,None +ACGGGTCAGAGTACAT-1,True,ACGGGTCAGAGTACAT-1_contig_4,True,328,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,15284,7,clonotype10,None +ACTATCTCAGTCTTCC-1,True,ACTATCTCAGTCTTCC-1_contig_1,True,520,TRA,TRAV6-6,None,TRAJ42,TRAC,True,True,CALGLGGSNAKLTF,TGTGCTCTGGGCCTTGGAGGAAGCAATGCAAAGCTAACCTTC,21896,2,clonotype33,clonotype33_consensus_1 +ACTATCTCAGTCTTCC-1,True,ACTATCTCAGTCTTCC-1_contig_2,True,311,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,17254,4,clonotype33,None +ACTATCTCAGTCTTCC-1,True,ACTATCTCAGTCTTCC-1_contig_3,True,441,TRA,None,None,TRAJ41,TRAC,False,False,None,None,29568,6,clonotype33,None +ACTGATGAGTCCTCCT-1,True,ACTGATGAGTCCTCCT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSQGQGNTEVFF,TGTGCCAGCAGCCAGGGACAGGGGAACACAGAAGTCTTCTTT,64020,21,clonotype34,clonotype34_consensus_1 +ACTGATGAGTCCTCCT-1,True,ACTGATGAGTCCTCCT-1_contig_2,True,567,TRA,TRAV3-3,None,TRAJ40,TRAC,True,False,None,None,8264,3,clonotype34,None +AGAGCGACAGCCACCA-1,True,AGAGCGACAGCCACCA-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,47560,15,clonotype1,clonotype1_consensus_2 +AGAGCGACAGCCACCA-1,True,AGAGCGACAGCCACCA-1_contig_2,True,526,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,10018,4,clonotype1,clonotype1_consensus_1 +AGAGCGACAGCCACCA-1,True,AGAGCGACAGCCACCA-1_contig_3,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,20944,4,clonotype1,None +AGAGCTTGTCAACATC-1,True,AGAGCTTGTCAACATC-1_contig_1,True,507,TRA,TRAV21-DV12,None,TRAJ56,TRAC,True,True,CILRGATGGNNKLTF,TGTATCCTGAGGGGGGCTACTGGAGGCAATAATAAGCTGACTTTT,17276,5,clonotype19,clonotype19_consensus_1 +AGAGCTTGTCAACATC-1,True,AGAGCTTGTCAACATC-1_contig_2,True,562,TRB,TRBV2,None,TRBJ2-4,TRBC2,True,True,CASSQRQGQNTLYF,TGTGCCAGCAGCCAAAGACAGGGCCAAAACACCTTGTACTTT,36978,9,clonotype19,clonotype19_consensus_2 +AGAGCTTGTCAACATC-1,True,AGAGCTTGTCAACATC-1_contig_3,True,405,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,17060,5,clonotype19,None +AGAGCTTTCCAGTATG-1,True,AGAGCTTTCCAGTATG-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,43516,9,clonotype11,clonotype11_consensus_1 +AGAGCTTTCCAGTATG-1,True,AGAGCTTTCCAGTATG-1_contig_2,True,637,TRA,TRAV7-1,None,TRAJ12,TRAC,True,True,CAVSIGTGGYKVVF,TGTGCAGTGAGCATTGGGACTGGAGGCTATAAAGTGGTCTTT,19834,4,clonotype11,clonotype11_consensus_2 +AGAGCTTTCCAGTATG-1,True,AGAGCTTTCCAGTATG-1_contig_3,True,653,TRA,TRAV14N-3,None,TRAJ7,TRAC,True,False,None,None,12874,5,clonotype11,None +AGCAGCCAGGGATGGG-1,True,AGCAGCCAGGGATGGG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,57944,5,clonotype20,clonotype20_consensus_1 +AGCAGCCAGGGATGGG-1,True,AGCAGCCAGGGATGGG-1_contig_2,True,428,TRA,TRAV9-4,None,TRAJ16,TRAC,True,False,CALSSSSGQKLVF,TGTGCTCTGAGTTCTTCAAGTGGCCAGAAGCTGGTTTTT,18512,1,clonotype20,None +AGCGTATCAGTAAGCG-1,True,AGCGTATCAGTAAGCG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGGAACACAGAAGTCTTCTTT,30952,6,clonotype3,clonotype3_consensus_2 +AGCGTATCAGTAAGCG-1,True,AGCGTATCAGTAAGCG-1_contig_2,True,667,TRA,TRAV9-4,None,TRAJ22,TRAC,True,True,CAVTSSGSWQLIF,TGTGCTGTGACATCTTCTGGCAGCTGGCAACTCATCTTT,15488,3,clonotype3,clonotype3_consensus_1 +AGCGTATCAGTAAGCG-1,True,AGCGTATCAGTAAGCG-1_contig_3,True,698,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,15430,5,clonotype3,None +AGCGTCGTCCAAATGC-1,True,AGCGTCGTCCAAATGC-1_contig_1,True,743,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,10330,3,clonotype9,clonotype9_consensus_1 +AGCGTCGTCCAAATGC-1,True,AGCGTCGTCCAAATGC-1_contig_2,True,514,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,47034,5,clonotype9,clonotype9_consensus_2 +AGCGTCGTCCAAATGC-1,True,AGCGTCGTCCAAATGC-1_contig_3,True,626,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,21384,2,clonotype9,None +AGGGATGGTCTGATTG-1,True,AGGGATGGTCTGATTG-1_contig_1,True,603,TRA,TRAV14D-3-DV8,None,TRAJ45,TRAC,True,True,CAASATGGADRLTF,TGTGCAGCAAGTGCGACAGGAGGTGCAGATAGACTCACCTTT,35678,4,clonotype35,clonotype35_consensus_1 +AGGGATGGTCTGATTG-1,True,AGGGATGGTCTGATTG-1_contig_2,True,528,TRB,TRBV10,None,TRBJ2-4,TRBC2,True,True,CASSLDWGGGNTLYF,TGTGCCAGCAGCTTGGACTGGGGGGGCGGGAACACCTTGTACTTT,41658,4,clonotype35,clonotype35_consensus_2 +AGGGTGAAGATATGCA-1,True,AGGGTGAAGATATGCA-1_contig_1,True,518,TRB,TRBV13-1,None,TRBJ2-1,TRBC2,True,True,CASSLGGRYAEQFF,TGTGCCAGCAGTCTGGGGGGGCGCTATGCTGAGCAGTTCTTC,49874,6,clonotype36,clonotype36_consensus_1 +AGGGTGAAGATATGCA-1,True,AGGGTGAAGATATGCA-1_contig_2,True,337,TRA,TRAV16N,None,TRAJ50,TRAC,True,False,CAMRESASSSFSKLVF,TGTGCTATGAGAGAGTCAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,27728,2,clonotype36,None +AGGTCATAGGATGTAT-1,True,AGGTCATAGGATGTAT-1_contig_1,True,591,TRA,TRAV12-3,None,TRAJ49,TRAC,True,True,CALSDPVTGYQNFYF,TGTGCTTTGAGTGACCCTGTCACGGGTTACCAGAACTTCTATTTT,24622,13,clonotype12,clonotype12_consensus_1 +AGGTCATAGGATGTAT-1,True,AGGTCATAGGATGTAT-1_contig_2,True,578,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASRLGFEQYF,TGTGCCAGCCGACTGGGGTTTGAACAGTACTTC,48318,21,clonotype12,clonotype12_consensus_2 +AGTAGTCAGATCCCGC-1,True,AGTAGTCAGATCCCGC-1_contig_1,True,535,TRA,TRAV6N-7,None,TRAJ17,TRAC,True,True,CALRSTNSAGNKLTF,TGTGCTCTGAGGTCAACTAACAGTGCAGGGAACAAGCTAACTTTT,59814,4,clonotype37,clonotype37_consensus_1 +AGTAGTCAGATCCCGC-1,True,AGTAGTCAGATCCCGC-1_contig_2,True,536,TRB,TRBV20,TRBD2,TRBJ2-3,TRBC2,True,True,CGARDWGGSETLYF,TGTGGTGCTAGGGACTGGGGGGGCTCAGAAACGCTGTATTTT,19018,1,clonotype37,clonotype37_consensus_2 +AGTGAGGTCAACACCA-1,True,AGTGAGGTCAACACCA-1_contig_1,True,588,TRA,TRAV12-3,None,TRAJ15,TRAC,True,True,CALSAYQGGRALIF,TGTGCTTTGAGTGCCTACCAGGGAGGCAGAGCTCTGATATTT,47388,8,clonotype38,clonotype38_consensus_2 +AGTGAGGTCAACACCA-1,True,AGTGAGGTCAACACCA-1_contig_2,True,710,TRB,TRBV19,None,TRBJ1-6,TRBC1,True,True,CASTRTGGGNSPLYF,TGTGCCAGCACCCGGACAGGGGGCGGTAATTCGCCCCTCTACTTT,11320,2,clonotype38,clonotype38_consensus_1 +AGTGAGGTCAACACCA-1,True,AGTGAGGTCAACACCA-1_contig_3,True,630,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,19716,2,clonotype38,None +AGTGTCACAAGCTGAG-1,True,AGTGTCACAAGCTGAG-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,37212,10,clonotype1,clonotype1_consensus_2 +AGTGTCACAAGCTGAG-1,True,AGTGTCACAAGCTGAG-1_contig_2,True,555,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,28976,5,clonotype1,clonotype1_consensus_1 +AGTGTCACAAGCTGAG-1,True,AGTGTCACAAGCTGAG-1_contig_3,True,581,TRA,TRAV5D-4,None,TRAJ50,TRAC,True,False,None,None,9946,3,clonotype1,None +ATAAGAGAGGAATTAC-1,True,ATAAGAGAGGAATTAC-1_contig_1,True,594,TRA,TRAV7D-4,None,TRAJ48,TRAC,True,True,CAASEQGGNEKITF,TGTGCAGCTAGTGAGCAAGGGGGAAATGAGAAAATAACTTTT,35276,6,clonotype39,clonotype39_consensus_2 +ATAAGAGAGGAATTAC-1,True,ATAAGAGAGGAATTAC-1_contig_2,True,575,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGDVRASAETLYF,TGTGCCAGCGGTGATGTCAGGGCTAGTGCAGAAACGCTGTATTTT,39376,7,clonotype39,clonotype39_consensus_1 +ATCCGAACAAGTCTAC-1,True,ATCCGAACAAGTCTAC-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-1,TRBC2,True,True,CASSQGQGDYAEQFF,TGTGCCAGCAGCCAAGGACAGGGGGACTATGCTGAGCAGTTCTTC,38822,11,clonotype40,clonotype40_consensus_2 +ATCCGAACAAGTCTAC-1,True,ATCCGAACAAGTCTAC-1_contig_2,True,725,TRA,TRAV9D-2,None,TRAJ43,TRAC,True,True,CAVGNNNAPRF,TGTGCTGTGGGAAACAACAATGCCCCACGATTT,22560,4,clonotype40,clonotype40_consensus_1 +ATCCGAACAAGTCTAC-1,True,ATCCGAACAAGTCTAC-1_contig_3,True,443,TRA,None,None,TRAJ41,TRAC,False,False,None,None,11790,5,clonotype40,None +ATCGAGTGTGTGTGCC-1,True,ATCGAGTGTGTGTGCC-1_contig_1,True,520,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,9558,1,clonotype1,clonotype1_consensus_1 +ATCGAGTGTGTGTGCC-1,True,ATCGAGTGTGTGTGCC-1_contig_2,True,682,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,56060,5,clonotype1,clonotype1_consensus_2 +ATCGAGTGTGTGTGCC-1,True,ATCGAGTGTGTGTGCC-1_contig_3,True,670,TRA,TRAV5D-4,None,TRAJ50,TRAC,True,False,None,None,11946,1,clonotype1,None +ATCTACTAGGGTTTCT-1,True,ATCTACTAGGGTTTCT-1_contig_1,True,549,TRA,TRAV7-3,None,TRAJ18,TRAC,True,True,CAVDRGSALGRLHF,TGTGCAGTCGATAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,28636,3,clonotype41,clonotype41_consensus_1 +ATCTACTAGGGTTTCT-1,True,ATCTACTAGGGTTTCT-1_contig_2,True,661,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,True,CGATDIYEQYF,TGTGGTGCTACCGACATCTATGAACAGTACTTC,49042,3,clonotype41,clonotype41_consensus_2 +ATCTGCCCAGCTATTG-1,True,ATCTGCCCAGCTATTG-1_contig_1,True,718,TRB,TRBV19,None,TRBJ2-3,TRBC2,True,True,CASSRDWGAETLYF,TGTGCCAGCAGTCGGGACTGGGGGGCTGAAACGCTGTATTTT,59122,9,clonotype42,clonotype42_consensus_1 +ATCTGCCCAGCTATTG-1,True,ATCTGCCCAGCTATTG-1_contig_2,True,538,TRB,TRBV13-1,None,TRBJ2-4,TRBC2,True,False,None,None,11944,4,clonotype42,None +ATGAGGGAGGGCATGT-1,True,ATGAGGGAGGGCATGT-1_contig_1,True,538,TRB,TRBV20,TRBD1,TRBJ2-7,TRBC2,True,True,CGVPRDRGREQYF,TGTGGTGTCCCCCGGGACAGGGGGCGCGAACAGTACTTC,36286,16,clonotype13,clonotype13_consensus_3 +ATGAGGGAGGGCATGT-1,True,ATGAGGGAGGGCATGT-1_contig_2,True,509,TRB,TRBV29,None,TRBJ2-7,TRBC2,True,True,CASSGDRGHEQYF,TGTGCTAGCAGTGGGGACAGGGGTCATGAACAGTACTTC,24636,10,clonotype13,clonotype13_consensus_1 +ATGAGGGAGGGCATGT-1,True,ATGAGGGAGGGCATGT-1_contig_3,True,513,TRA,TRAV13-1,None,TRAJ6,TRAC,True,True,CAMATSGGNYKPTF,TGTGCTATGGCCACCTCAGGAGGAAACTACAAACCTACGTTT,3212,2,clonotype13,clonotype13_consensus_2 +ATGAGGGAGGGCATGT-1,True,ATGAGGGAGGGCATGT-1_contig_4,True,557,TRA,TRAV4-3,None,TRAJ15,TRAC,True,False,None,None,14204,4,clonotype13,None +ATTATCCAGCTCCCAG-1,True,ATTATCCAGCTCCCAG-1_contig_1,True,504,TRA,TRAV21-DV12,None,TRAJ47,TRAC,True,True,CILRRVDYANKMIF,TGTATCCTGAGACGGGTGGACTATGCAAACAAGATGATCTTT,10764,1,clonotype43,clonotype43_consensus_2 +ATTATCCAGCTCCCAG-1,True,ATTATCCAGCTCCCAG-1_contig_2,True,605,TRB,TRBV3,None,TRBJ1-2,TRBC1,True,True,CASSLAGGVNSDYTF,TGTGCCAGCAGCTTAGCAGGGGGAGTAAACTCCGACTACACCTTC,59984,9,clonotype43,clonotype43_consensus_1 +ATTATCCAGGGTATCG-1,True,ATTATCCAGGGTATCG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,34478,13,clonotype4,clonotype4_consensus_2 +ATTATCCAGGGTATCG-1,True,ATTATCCAGGGTATCG-1_contig_2,True,715,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,10472,3,clonotype4,clonotype4_consensus_1 +ATTATCCAGGGTATCG-1,True,ATTATCCAGGGTATCG-1_contig_3,True,354,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,13478,5,clonotype4,None +ATTATCCAGGGTATCG-1,True,ATTATCCAGGGTATCG-1_contig_4,True,344,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,18142,4,clonotype4,None +ATTCTACAGCTAAGAT-1,True,ATTCTACAGCTAAGAT-1_contig_1,True,644,TRA,TRAV7-1,None,TRAJ12,TRAC,True,True,CAVSIGTGGYKVVF,TGTGCAGTGAGCATTGGGACTGGAGGCTATAAAGTGGTCTTT,12214,12,clonotype11,clonotype11_consensus_2 +ATTCTACAGCTAAGAT-1,True,ATTCTACAGCTAAGAT-1_contig_2,True,566,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,54234,19,clonotype11,clonotype11_consensus_1 +ATTCTACGTCCGAGTC-1,True,ATTCTACGTCCGAGTC-1_contig_1,True,543,TRB,TRBV13-2,TRBD2,TRBJ2-4,TRBC2,True,True,CASGDGDWGGATVTLYF,TGTGCCAGCGGTGATGGGGACTGGGGGGGCGCGACGGTCACCTTGTACTTT,52476,9,clonotype44,clonotype44_consensus_2 +ATTCTACGTCCGAGTC-1,True,ATTCTACGTCCGAGTC-1_contig_2,True,567,TRA,TRAV2,None,TRAJ15,TRAC,True,True,CIVTPLQGGRALIF,TGCATTGTGACCCCCCTCCAGGGAGGCAGAGCTCTGATATTT,11354,2,clonotype44,clonotype44_consensus_3 +ATTCTACGTCCGAGTC-1,True,ATTCTACGTCCGAGTC-1_contig_3,True,557,TRA,TRAV5-1,None,TRAJ11,TRAC,True,True,CSASRGDSGYNKLTF,TGCTCAGCAAGTAGAGGGGACTCGGGATACAACAAACTCACTTTT,9888,3,clonotype44,clonotype44_consensus_1 +ATTCTACGTCCGAGTC-1,True,ATTCTACGTCCGAGTC-1_contig_4,True,470,TRB,TRBV19,None,TRBJ2-3,None,True,False,CQQFRGRSAETLYF,TGCCAGCAGTTCAGGGGGCGGTCTGCAGAAACGCTGTATTTT,2528,1,clonotype44,None +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_1,True,569,TRB,TRBV2,None,TRBJ1-1,TRBC1,True,True,CASSQEEGANTEVFF,TGTGCCAGCAGCCAAGAGGAGGGTGCAAACACAGAAGTCTTCTTT,15342,5,clonotype6,clonotype6_consensus_2 +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_2,True,558,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCCGGGCAAATGCTTACAAAGTCATCTTT,9492,4,clonotype6,clonotype6_consensus_1 +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_3,True,308,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,7046,1,clonotype6,None +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_4,True,364,TRB,None,None,TRBJ2-4,TRBC2,False,False,None,None,7616,1,clonotype6,None +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_5,True,320,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,9150,2,clonotype6,None +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_6,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,21360,5,clonotype6,None +ATTGGACAGGACCACA-1,True,ATTGGACAGGACCACA-1_contig_7,True,562,TRA,TRAV8N-2,None,TRAJ52,TRAC,True,False,None,None,7236,3,clonotype6,None +ATTGGACTCGGTTAAC-1,True,ATTGGACTCGGTTAAC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,31014,9,clonotype9,clonotype9_consensus_2 +ATTGGACTCGGTTAAC-1,True,ATTGGACTCGGTTAAC-1_contig_2,True,725,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,15346,4,clonotype9,clonotype9_consensus_1 +ATTGGACTCGGTTAAC-1,True,ATTGGACTCGGTTAAC-1_contig_3,True,339,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,30330,6,clonotype9,None +CAAGGCCCATCCAACA-1,True,CAAGGCCCATCCAACA-1_contig_1,True,727,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,31136,7,clonotype4,clonotype4_consensus_1 +CAAGGCCCATCCAACA-1,True,CAAGGCCCATCCAACA-1_contig_2,True,541,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,17962,4,clonotype4,clonotype4_consensus_2 +CAAGGCCCATCCAACA-1,True,CAAGGCCCATCCAACA-1_contig_3,True,351,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,11324,1,clonotype4,None +CAAGGCCCATCCAACA-1,True,CAAGGCCCATCCAACA-1_contig_4,True,344,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,13736,1,clonotype4,None +CACATAGGTCTCCCTA-1,True,CACATAGGTCTCCCTA-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,33978,10,clonotype1,clonotype1_consensus_2 +CACATAGGTCTCCCTA-1,True,CACATAGGTCTCCCTA-1_contig_2,True,439,TRA,TRAV6-6,None,TRAJ45,None,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,7600,1,clonotype1,clonotype1_consensus_1 +CACATAGGTCTCCCTA-1,True,CACATAGGTCTCCCTA-1_contig_3,True,301,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,26146,6,clonotype1,None +CAGAATCTCTAGAGTC-1,True,CAGAATCTCTAGAGTC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGGAACACAGAAGTCTTCTTT,61260,18,clonotype45,clonotype45_consensus_1 +CAGAATCTCTAGAGTC-1,True,CAGAATCTCTAGAGTC-1_contig_2,True,734,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CALTTSSGQKLVF,TGTGCTCTGACAACTTCAAGTGGCCAGAAGCTGGTTTTT,6418,8,clonotype45,clonotype45_consensus_2 +CAGCAGCAGATGCGAC-1,True,CAGCAGCAGATGCGAC-1_contig_1,True,624,TRB,TRBV2,None,TRBJ2-7,TRBC2,True,True,CASSQDWGVEQYF,TGTGCCAGCAGCCAAGACTGGGGAGTTGAACAGTACTTC,20358,5,clonotype46,clonotype46_consensus_1 +CAGCAGCAGATGCGAC-1,True,CAGCAGCAGATGCGAC-1_contig_2,True,524,TRA,TRAV6-6,None,TRAJ39,TRAC,True,True,CALAPNNNAGAKLTF,TGTGCTCTGGCCCCGAATAATAATGCAGGTGCCAAGCTCACATTC,29680,1,clonotype46,clonotype46_consensus_2 +CAGCAGCAGATGCGAC-1,True,CAGCAGCAGATGCGAC-1_contig_3,True,507,TRA,TRAV6-5,None,TRAJ40,TRAC,True,False,CSGPHTGNYKYVF,TGCTCTGGGCCCCATACAGGAAACTACAAATACGTCTTT,23158,1,clonotype46,None +CAGGTGCCAATCGAAA-1,True,CAGGTGCCAATCGAAA-1_contig_1,True,633,TRB,TRBV2,None,TRBJ1-5,TRBC1,True,True,CASSRPNQAPLF,TGTGCCAGCAGCCGACCCAACCAGGCTCCGCTTTTT,8356,3,clonotype47,clonotype47_consensus_1 +CAGGTGCCAATCGAAA-1,True,CAGGTGCCAATCGAAA-1_contig_2,True,560,Multi,TRDV1,None,TRAJ56,TRAC,True,False,CGGKGGATGGNNKLTF,TGTGGAGGGAAGGGGGGGGCTACTGGAGGCAATAATAAGCTGACTTTT,69802,11,clonotype47,None +CATATGGTCTGTCAAG-1,True,CATATGGTCTGTCAAG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSVGQGNTEVFF,TGTGCCAGCAGCGTCGGACAGGGAAACACAGAAGTCTTCTTT,39634,8,clonotype14,clonotype14_consensus_1 +CATATGGTCTGTCAAG-1,True,CATATGGTCTGTCAAG-1_contig_2,True,726,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CAVSTSSGQKLVF,TGTGCTGTGAGCACTTCAAGTGGCCAGAAGCTGGTTTTT,10456,3,clonotype14,clonotype14_consensus_2 +CATATGGTCTGTCAAG-1,True,CATATGGTCTGTCAAG-1_contig_3,True,522,TRA,TRAV6-6,None,TRAJ45,TRAC,True,False,CTTVLWVPHTGGADRLTF,TGTACTACTGTGCTCTGGGTCCCTCATACAGGAGGTGCAGATAGACTCACCTTT,5504,1,clonotype14,None +CATATGGTCTGTCAAG-1,True,CATATGGTCTGTCAAG-1_contig_4,True,322,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,10720,1,clonotype14,None +CATATGGTCTGTCAAG-1,True,CATATGGTCTGTCAAG-1_contig_5,True,361,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,10152,1,clonotype14,None +CATCGGGAGTCATCCA-1,True,CATCGGGAGTCATCCA-1_contig_1,True,540,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,50402,11,clonotype4,clonotype4_consensus_2 +CATCGGGAGTCATCCA-1,True,CATCGGGAGTCATCCA-1_contig_2,True,697,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,24880,5,clonotype4,clonotype4_consensus_1 +CATGACAAGCGTTCCG-1,True,CATGACAAGCGTTCCG-1_contig_1,True,573,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGDAWGVSAETLYF,TGTGCCAGCGGTGATGCTTGGGGGGTCAGTGCAGAAACGCTGTATTTT,37754,4,clonotype48,clonotype48_consensus_1 +CATGACAAGCGTTCCG-1,True,CATGACAAGCGTTCCG-1_contig_2,True,535,TRA,TRAV6D-3,None,TRAJ49,TRAC,True,True,CAMNPGYQNFYF,TGTGCTATGAATCCGGGTTACCAGAACTTCTATTTT,37322,4,clonotype48,clonotype48_consensus_2 +CATGCCTCAGACTCGC-1,True,CATGCCTCAGACTCGC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,31418,7,clonotype7,clonotype7_consensus_1 +CATGCCTCAGACTCGC-1,True,CATGCCTCAGACTCGC-1_contig_2,True,338,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,35110,6,clonotype7,None +CATGCCTCAGACTCGC-1,True,CATGCCTCAGACTCGC-1_contig_3,True,485,TRA,TRAV9-4,None,TRAJ17,TRAC,True,False,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,6104,4,clonotype7,None +CATGGCGAGAAAGTGG-1,True,CATGGCGAGAAAGTGG-1_contig_1,True,582,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALSVGGADRLTF,TGTGCTCTGAGTGTGGGAGGTGCAGATAGACTCACCTTT,15328,5,clonotype49,clonotype49_consensus_2 +CATGGCGAGAAAGTGG-1,True,CATGGCGAGAAAGTGG-1_contig_2,True,588,TRA,TRAV5D-4,None,TRAJ42,TRAC,True,True,CAAVGGSNAKLTF,TGTGCTGCAGTCGGAGGAAGCAATGCAAAGCTAACCTTC,21978,8,clonotype49,clonotype49_consensus_3 +CATGGCGAGAAAGTGG-1,True,CATGGCGAGAAAGTGG-1_contig_3,True,568,TRB,TRBV1,None,TRBJ2-5,TRBC2,True,True,CTCSAGGGQDTQYF,TGCACCTGCAGTGCAGGGGGAGGCCAAGACACCCAGTACTTT,39582,16,clonotype49,clonotype49_consensus_1 +CCAATCCGTATATGGA-1,True,CCAATCCGTATATGGA-1_contig_1,True,590,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASSAPGLGSYEQYF,TGTGCCAGCAGTGCCCCGGGACTGGGGTCCTATGAACAGTACTTC,17572,2,clonotype15,clonotype15_consensus_2 +CCAATCCGTATATGGA-1,True,CCAATCCGTATATGGA-1_contig_2,True,546,TRA,TRAV7D-3,None,TRAJ26,TRAC,True,True,CAVSLNYAQGLTF,TGTGCAGTGAGCCTCAACTATGCCCAGGGATTAACCTTC,10232,1,clonotype15,clonotype15_consensus_1 +CCAATCCGTATATGGA-1,True,CCAATCCGTATATGGA-1_contig_3,True,647,TRB,None,None,TRBJ1-4,TRBC1,False,False,None,None,38020,10,clonotype15,None +CCAATCCGTATATGGA-1,True,CCAATCCGTATATGGA-1_contig_4,True,534,TRA,TRAV16N,None,TRAJ38,TRAC,True,False,None,None,10662,3,clonotype15,None +CCACGGAGTGCGATAG-1,True,CCACGGAGTGCGATAG-1_contig_1,True,663,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSIDSAEVFF,TGTGCCAGCAGTATCGACAGCGCAGAAGTCTTCTTT,69598,14,clonotype50,clonotype50_consensus_1 +CCACTACGTTCCATGA-1,True,CCACTACGTTCCATGA-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,45668,14,clonotype1,clonotype1_consensus_2 +CCACTACGTTCCATGA-1,True,CCACTACGTTCCATGA-1_contig_2,True,531,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,15232,7,clonotype1,clonotype1_consensus_1 +CCACTACGTTCCATGA-1,True,CCACTACGTTCCATGA-1_contig_3,True,333,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,6432,1,clonotype1,None +CCACTACGTTCCATGA-1,True,CCACTACGTTCCATGA-1_contig_4,True,391,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,9362,4,clonotype1,None +CCATTCGAGATCTGAA-1,True,CCATTCGAGATCTGAA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCAGGACTGGGGGACTCCTATGAACAGTACTTC,60610,7,clonotype16,clonotype16_consensus_1 +CCATTCGAGATCTGAA-1,True,CCATTCGAGATCTGAA-1_contig_2,True,594,TRA,TRAV7D-4,None,TRAJ40,TRAC,True,True,CAASEGTGNYKYVF,TGTGCAGCTAGTGAAGGTACAGGAAACTACAAATACGTCTTT,8078,2,clonotype16,clonotype16_consensus_2 +CCATTCGCACGCATCG-1,True,CCATTCGCACGCATCG-1_contig_1,True,514,TRB,TRBV13-1,None,TRBJ2-5,TRBC2,True,True,CASSDTTGGQDTQYF,TGTGCCAGCAGTGATACTACTGGGGGCCAAGACACCCAGTACTTT,49954,9,clonotype21,clonotype21_consensus_1 +CCATTCGCACGCATCG-1,True,CCATTCGCACGCATCG-1_contig_2,True,374,TRB,None,None,TRBJ2-4,TRBC2,False,False,None,None,12672,4,clonotype21,None +CCATTCGCACGCATCG-1,True,CCATTCGCACGCATCG-1_contig_3,True,323,TRA,TRAV12-3,None,TRAJ31,TRAC,True,False,None,None,12410,2,clonotype21,None +CCATTCGTCATCTGCC-1,True,CCATTCGTCATCTGCC-1_contig_1,True,512,TRB,TRBV13-1,None,TRBJ2-3,TRBC2,True,True,CASRDSAETLYF,TGTGCCAGCAGGGACAGTGCAGAAACGCTGTATTTT,53134,8,clonotype51,clonotype51_consensus_2 +CCATTCGTCATCTGCC-1,True,CCATTCGTCATCTGCC-1_contig_2,True,522,TRA,TRAV6-6,None,TRAJ26,TRAC,True,True,CALGDHGNYAQGLTF,TGTGCTCTGGGTGATCACGGTAACTATGCCCAGGGATTAACCTTC,24628,3,clonotype51,clonotype51_consensus_1 +CCCTCCTGTTAGGGTG-1,True,CCCTCCTGTTAGGGTG-1_contig_1,True,520,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALSDPAGGADRLTF,TGTGCTCTGAGTGATCCGGCAGGAGGTGCAGATAGACTCACCTTT,44804,9,clonotype52,clonotype52_consensus_1 +CCCTCCTGTTAGGGTG-1,True,CCCTCCTGTTAGGGTG-1_contig_2,True,562,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,False,None,None,5582,1,clonotype52,None +CCCTCCTGTTAGGGTG-1,True,CCCTCCTGTTAGGGTG-1_contig_3,True,753,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,False,CASSIGGNYAEQFF,TGTGCCAGCAGTATTGGGGGGAACTATGCTGAGCAGTTCTTC,9528,2,clonotype52,None +CCCTCCTGTTAGGGTG-1,True,CCCTCCTGTTAGGGTG-1_contig_4,True,355,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,17390,3,clonotype52,None +CCGTTCACATATACGC-1,True,CCGTTCACATATACGC-1_contig_1,True,728,TRA,TRAV9-4,None,TRAJ22,TRAC,True,True,CAVTSSGSWQLIF,TGTGCTGTGACATCTTCTGGCAGCTGGCAACTCATCTTT,1494,1,clonotype3,clonotype3_consensus_1 +CCGTTCACATATACGC-1,True,CCGTTCACATATACGC-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGGAACACAGAAGTCTTCTTT,66676,6,clonotype3,clonotype3_consensus_2 +CCGTTCACATATACGC-1,True,CCGTTCACATATACGC-1_contig_3,True,627,TRA,None,None,TRAJ41,TRAC,False,False,None,None,8524,5,clonotype3,None +CCTAAAGAGAGACGAA-1,True,CCTAAAGAGAGACGAA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,27684,18,clonotype5,clonotype5_consensus_3 +CCTAAAGAGAGACGAA-1,True,CCTAAAGAGAGACGAA-1_contig_2,True,731,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,15062,10,clonotype5,clonotype5_consensus_2 +CCTAAAGAGAGACGAA-1,True,CCTAAAGAGAGACGAA-1_contig_3,True,731,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,12566,8,clonotype5,clonotype5_consensus_1 +CCTAAAGAGAGACGAA-1,True,CCTAAAGAGAGACGAA-1_contig_4,True,368,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,10268,5,clonotype5,None +CCTAAAGAGAGACGAA-1,True,CCTAAAGAGAGACGAA-1_contig_5,True,429,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,4538,2,clonotype5,None +CCTAAAGAGAGACGAA-1,True,CCTAAAGAGAGACGAA-1_contig_6,True,639,TRB,TRBV2,None,TRBJ1-1,TRBC1,True,False,None,None,6442,6,clonotype5,None +CCTAAAGTCGGACAAG-1,True,CCTAAAGTCGGACAAG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,43694,4,clonotype22,clonotype22_consensus_2 +CCTAAAGTCGGACAAG-1,True,CCTAAAGTCGGACAAG-1_contig_2,True,657,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CALSSSSGQKLVF,TGTGCTCTGAGTTCTTCAAGTGGCCAGAAGCTGGTTTTT,30184,6,clonotype22,clonotype22_consensus_1 +CCTAAAGTCGGACAAG-1,True,CCTAAAGTCGGACAAG-1_contig_3,True,800,TRB,None,None,TRBJ1-5,None,False,False,None,None,436,1,clonotype22,None +CCTAAAGTCGGACAAG-1,True,CCTAAAGTCGGACAAG-1_contig_4,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,4072,3,clonotype22,None +CCTACACTCCTACAGA-1,True,CCTACACTCCTACAGA-1_contig_1,True,656,TRB,TRBV19,None,TRBJ2-4,TRBC2,True,True,CASSISGGDSQNTLYF,TGTGCCAGCAGTATCTCTGGGGGGGACAGTCAAAACACCTTGTACTTT,7352,1,clonotype53,clonotype53_consensus_2 +CCTACACTCCTACAGA-1,True,CCTACACTCCTACAGA-1_contig_2,True,521,TRA,TRAV7D-2,None,TRAJ9,TRAC,True,True,CAASKGGNMGYKLTF,TGTGCAGCAAGCAAGGGGGGGAACATGGGCTACAAACTTACCTTC,11346,5,clonotype53,clonotype53_consensus_1 +CCTACACTCCTACAGA-1,True,CCTACACTCCTACAGA-1_contig_3,True,461,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,52554,9,clonotype53,None +CCTACACTCTATGTGG-1,True,CCTACACTCTATGTGG-1_contig_1,True,522,TRB,TRBV17,None,TRBJ2-7,TRBC2,True,True,CASSRDRGHEQYF,TGTGCTAGCAGTAGAGACAGGGGGCATGAACAGTACTTC,69836,22,clonotype54,clonotype54_consensus_1 +CCTACCAGTATGGTTC-1,True,CCTACCAGTATGGTTC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,47968,17,clonotype20,clonotype20_consensus_1 +CCTACCAGTATGGTTC-1,True,CCTACCAGTATGGTTC-1_contig_2,True,333,TRA,TRAV9D-2,None,TRAJ16,TRAC,True,False,CALSSSSGQKLVF,TGTGCTCTGAGTTCTTCAAGTGGCCAGAAGCTGGTTTTT,22470,8,clonotype20,None +CCTACCAGTATGGTTC-1,True,CCTACCAGTATGGTTC-1_contig_3,True,323,TRB,None,None,TRBJ2-2,TRBC2,False,False,None,None,4056,4,clonotype20,None +CCTCAGTAGAATAGGG-1,True,CCTCAGTAGAATAGGG-1_contig_1,True,517,TRB,TRBV14,None,TRBJ1-1,TRBC1,True,True,CASSFGTVTEVFF,TGTGCCAGCAGTTTTGGGACCGTCACAGAAGTCTTCTTT,32852,8,clonotype18,clonotype18_consensus_1 +CCTCAGTAGAATAGGG-1,True,CCTCAGTAGAATAGGG-1_contig_2,True,371,Multi,TRDV1,None,None,TRAC,False,False,None,None,10042,2,clonotype18,None +CCTCAGTAGAATAGGG-1,True,CCTCAGTAGAATAGGG-1_contig_3,True,434,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,33882,5,clonotype18,None +CCTCTGAAGCTAGTCT-1,True,CCTCTGAAGCTAGTCT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,39912,12,clonotype5,clonotype5_consensus_3 +CCTCTGAAGCTAGTCT-1,True,CCTCTGAAGCTAGTCT-1_contig_2,True,514,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,9560,3,clonotype5,clonotype5_consensus_2 +CCTCTGAAGCTAGTCT-1,True,CCTCTGAAGCTAGTCT-1_contig_3,True,514,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,17668,9,clonotype5,clonotype5_consensus_1 +CCTCTGAAGCTAGTCT-1,True,CCTCTGAAGCTAGTCT-1_contig_4,True,357,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,4708,3,clonotype5,None +CCTTCGAAGGCTCTTA-1,True,CCTTCGAAGGCTCTTA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,24430,13,clonotype2,clonotype2_consensus_2 +CCTTCGAAGGCTCTTA-1,True,CCTTCGAAGGCTCTTA-1_contig_2,True,670,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,10456,4,clonotype2,clonotype2_consensus_1 +CCTTCGAAGGCTCTTA-1,True,CCTTCGAAGGCTCTTA-1_contig_3,True,331,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,15272,8,clonotype2,None +CCTTCGAAGGCTCTTA-1,True,CCTTCGAAGGCTCTTA-1_contig_4,True,306,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,23862,8,clonotype2,None +CGACCTTTCGGTCTAA-1,True,CGACCTTTCGGTCTAA-1_contig_1,True,521,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,41796,3,clonotype1,clonotype1_consensus_1 +CGACCTTTCGGTCTAA-1,True,CGACCTTTCGGTCTAA-1_contig_2,True,703,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,34836,3,clonotype1,clonotype1_consensus_2 +CGAGCACAGACTCGGA-1,True,CGAGCACAGACTCGGA-1_contig_1,True,669,TRA,TRAV7-1,None,TRAJ12,TRAC,True,True,CAVSIGTGGYKVVF,TGTGCAGTGAGCATTGGGACTGGAGGCTATAAAGTGGTCTTT,37372,4,clonotype11,clonotype11_consensus_2 +CGAGCACAGACTCGGA-1,True,CGAGCACAGACTCGGA-1_contig_2,True,512,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,29222,5,clonotype11,clonotype11_consensus_1 +CGAGCACAGACTCGGA-1,True,CGAGCACAGACTCGGA-1_contig_3,True,603,TRA,TRAV14N-3,None,TRAJ7,TRAC,True,False,None,None,7188,1,clonotype11,None +CGAGCCACACGTGAGA-1,True,CGAGCCACACGTGAGA-1_contig_1,True,558,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCCGGGCAAATGCTTACAAAGTCATCTTT,53326,10,clonotype23,clonotype23_consensus_1 +CGATCGGCACCGTTGG-1,True,CGATCGGCACCGTTGG-1_contig_1,True,522,TRB,TRBV17,None,TRBJ1-1,TRBC1,True,True,CASSRGSNTEVFF,TGTGCTAGCAGTAGAGGATCAAACACAGAAGTCTTCTTT,55720,8,clonotype55,clonotype55_consensus_1 +CGATCGGCACCGTTGG-1,True,CGATCGGCACCGTTGG-1_contig_2,True,607,TRA,TRAV5D-4,None,TRAJ31,TRAC,True,True,CAASRGNNRIFF,TGTGCTGCAAGTAGGGGCAATAACAGAATCTTCTTT,21432,3,clonotype55,clonotype55_consensus_2 +CGATGTAAGTGTCCCG-1,True,CGATGTAAGTGTCCCG-1_contig_1,True,580,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-1,TRBC2,True,True,CASGEGGADYAEQFF,TGTGCCAGCGGTGAGGGGGGCGCTGACTATGCTGAGCAGTTCTTC,52678,4,clonotype56,clonotype56_consensus_1 +CGATGTAAGTGTCCCG-1,True,CGATGTAAGTGTCCCG-1_contig_2,True,528,TRA,TRAV7D-5,None,TRAJ17,TRAC,True,True,CAVSPRSAGNKLTF,TGTGCAGTGAGCCCAAGGAGTGCAGGGAACAAGCTAACTTTT,25262,4,clonotype56,clonotype56_consensus_2 +CGGACGTAGGACAGCT-1,True,CGGACGTAGGACAGCT-1_contig_1,True,676,TRA,TRAV7-1,None,TRAJ32,TRAC,True,True,CAVDGGSGNKLIF,TGTGCAGTGGATGGGGGCAGTGGCAACAAGCTCATCTTT,22524,4,clonotype57,clonotype57_consensus_1 +CGGACGTAGGACAGCT-1,True,CGGACGTAGGACAGCT-1_contig_2,True,565,TRB,TRBV2,None,TRBJ2-5,TRBC2,True,True,CASSQDWGAQDTQYF,TGTGCCAGCAGCCAAGATTGGGGGGCCCAAGACACCCAGTACTTT,7130,1,clonotype57,clonotype57_consensus_2 +CGGACGTAGGACAGCT-1,True,CGGACGTAGGACAGCT-1_contig_3,True,567,TRA,TRAV6N-7,None,TRAJ6,TRAC,True,False,None,None,26012,2,clonotype57,None +CGGACGTAGGACAGCT-1,True,CGGACGTAGGACAGCT-1_contig_4,True,326,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,14846,1,clonotype57,None +CGGACGTAGGACAGCT-1,True,CGGACGTAGGACAGCT-1_contig_5,True,613,TRB,TRBV13-1,TRBD1,TRBJ2-5,TRBC2,True,False,CQHSGQGADTQYF,TGCCAGCACTCGGGACAGGGGGCCGACACCCAGTACTTT,7738,1,clonotype57,None +CGGAGCTAGACCTTTG-1,True,CGGAGCTAGACCTTTG-1_contig_1,True,591,TRA,TRAV12-3,None,TRAJ49,TRAC,True,True,CALSDPVTGYQNFYF,TGTGCTTTGAGTGACCCTGTCACGGGTTACCAGAACTTCTATTTT,34860,7,clonotype12,clonotype12_consensus_1 +CGGAGCTAGACCTTTG-1,True,CGGAGCTAGACCTTTG-1_contig_2,True,549,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASRLGFEQYF,TGTGCCAGCCGACTGGGGTTTGAACAGTACTTC,43196,6,clonotype12,clonotype12_consensus_2 +CGTAGGCTCTGCCAGG-1,True,CGTAGGCTCTGCCAGG-1_contig_1,True,531,TRA,TRAV6N-7,None,TRAJ33,TRAC,True,True,CALSDRGSNYQLIW,TGTGCTCTGAGTGATCGGGGTAGCAACTATCAGTTGATCTGG,48210,11,clonotype58,clonotype58_consensus_1 +CGTAGGCTCTGCCAGG-1,True,CGTAGGCTCTGCCAGG-1_contig_2,True,701,TRB,TRBV19,None,TRBJ1-5,TRBC1,True,True,CASSIGQGATQAPLF,TGTGCCAGCAGTATCGGACAGGGGGCTACCCAGGCTCCGCTTTTT,11194,5,clonotype58,clonotype58_consensus_2 +CGTAGGCTCTGCCAGG-1,True,CGTAGGCTCTGCCAGG-1_contig_3,True,335,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,19228,11,clonotype58,None +CGTGTAATCTCTTATG-1,True,CGTGTAATCTCTTATG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSLGQGNTEVFF,TGTGCCAGCAGCCTGGGACAGGGGAACACAGAAGTCTTCTTT,50846,6,clonotype59,clonotype59_consensus_1 +CGTGTAATCTCTTATG-1,True,CGTGTAATCTCTTATG-1_contig_2,True,355,TRA,TRAV17,None,TRAJ16,TRAC,True,False,CALSTSSGQKLVF,TGTGCACTGTCAACTTCAAGTGGCCAGAAGCTGGTTTTT,20870,1,clonotype59,None +CGTTAGATCGTGACAT-1,True,CGTTAGATCGTGACAT-1_contig_1,True,537,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,20426,5,clonotype1,clonotype1_consensus_1 +CGTTAGATCGTGACAT-1,True,CGTTAGATCGTGACAT-1_contig_2,True,715,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,43768,10,clonotype1,clonotype1_consensus_2 +CGTTAGATCGTGACAT-1,True,CGTTAGATCGTGACAT-1_contig_3,True,326,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,12494,5,clonotype1,None +CTAACTTTCATGCTCC-1,True,CTAACTTTCATGCTCC-1_contig_1,True,555,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,3880,5,clonotype1,clonotype1_consensus_1 +CTAACTTTCATGCTCC-1,True,CTAACTTTCATGCTCC-1_contig_2,True,715,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,23734,6,clonotype1,clonotype1_consensus_2 +CTAACTTTCATGCTCC-1,True,CTAACTTTCATGCTCC-1_contig_3,True,384,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,31308,5,clonotype1,None +CTAACTTTCATGCTCC-1,True,CTAACTTTCATGCTCC-1_contig_4,True,389,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,16730,4,clonotype1,None +CTACACCTCTCCCTGA-1,True,CTACACCTCTCCCTGA-1_contig_1,True,602,TRA,TRAV5D-4,None,TRAJ33,TRAC,True,True,CAASEVDSNYQLIW,TGTGCTGCAAGTGAGGTGGATAGCAACTATCAGTTGATCTGG,27938,5,clonotype60,clonotype60_consensus_1 +CTACACCTCTCCCTGA-1,True,CTACACCTCTCCCTGA-1_contig_2,True,547,TRB,TRBV10,None,TRBJ1-4,TRBC1,True,True,CASSYGRFSNERLFF,TGTGCCAGCAGCTACGGCAGATTTTCCAACGAAAGATTATTTTTC,38184,4,clonotype60,clonotype60_consensus_2 +CTACACCTCTCCCTGA-1,True,CTACACCTCTCCCTGA-1_contig_3,True,668,TRB,TRBV19,None,TRBJ2-3,TRBC2,True,False,None,None,8734,3,clonotype60,None +CTAGAGTAGAAACCTA-1,True,CTAGAGTAGAAACCTA-1_contig_1,True,597,TRA,TRAV7D-4,None,TRAJ26,TRAC,True,True,CAASDLNNYAQGLTF,TGTGCAGCTAGTGACCTAAATAACTATGCCCAGGGATTAACCTTC,43448,3,clonotype61,clonotype61_consensus_1 +CTAGAGTAGAAACCTA-1,True,CTAGAGTAGAAACCTA-1_contig_2,True,695,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,3602,1,clonotype61,clonotype61_consensus_3 +CTAGAGTAGAAACCTA-1,True,CTAGAGTAGAAACCTA-1_contig_3,True,612,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGDAGGSAETLYF,TGTGCCAGCGGTGATGCGGGGGGTAGTGCAGAAACGCTGTATTTT,5334,4,clonotype61,clonotype61_consensus_2 +CTAGAGTAGAAACCTA-1,True,CTAGAGTAGAAACCTA-1_contig_4,True,533,TRA,TRAV3-3,None,TRAJ21,TRAC,True,False,None,None,19922,6,clonotype61,None +CTAGCCTGTAGCGTAG-1,True,CTAGCCTGTAGCGTAG-1_contig_1,True,552,TRA,TRAV7D-3,None,TRAJ52,TRAC,True,True,CAVSMPGANTGKLTF,TGTGCAGTGAGCATGCCTGGAGCTAACACTGGAAAGCTCACGTTT,15936,2,clonotype62,clonotype62_consensus_2 +CTAGCCTGTAGCGTAG-1,True,CTAGCCTGTAGCGTAG-1_contig_2,True,517,TRB,TRBV14,None,TRBJ2-2,TRBC2,True,True,CASSFDRGAQLYF,TGTGCCAGCAGTTTCGACAGGGGGGCGCAGCTCTACTTT,54180,6,clonotype62,clonotype62_consensus_1 +CTAGCCTGTAGCGTAG-1,True,CTAGCCTGTAGCGTAG-1_contig_3,True,329,TRB,TRBV13-2,None,TRBJ2-7,TRBC2,True,False,None,None,5602,1,clonotype62,None +CTCATTAGTACCTACA-1,True,CTCATTAGTACCTACA-1_contig_1,True,551,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCGGGACAGGGGAACACAGAAGTCTTCTTT,19342,4,clonotype22,clonotype22_consensus_2 +CTCATTAGTACCTACA-1,True,CTCATTAGTACCTACA-1_contig_2,True,716,TRA,TRAV9-4,None,TRAJ16,TRAC,True,True,CALSSSSGQKLVF,TGTGCTCTGAGTTCTTCAAGTGGCCAGAAGCTGGTTTTT,22448,7,clonotype22,clonotype22_consensus_1 +CTCATTAGTACCTACA-1,True,CTCATTAGTACCTACA-1_contig_3,True,355,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,16266,3,clonotype22,None +CTCATTAGTACCTACA-1,True,CTCATTAGTACCTACA-1_contig_4,True,362,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,17176,5,clonotype22,None +CTCCTAGCATGTCTCC-1,True,CTCCTAGCATGTCTCC-1_contig_1,True,594,TRA,TRAV7-4,None,TRAJ7,TRAC,True,True,CAASADYSNNRLTL,TGTGCAGCTAGTGCTGACTACAGCAACAACAGACTTACTTTG,29842,10,clonotype63,clonotype63_consensus_1 +CTCCTAGCATGTCTCC-1,True,CTCCTAGCATGTCTCC-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSSGGGNTEVFF,TGTGCCAGCAGCTCAGGGGGCGGGAACACAGAAGTCTTCTTT,44102,13,clonotype63,clonotype63_consensus_2 +CTCGTACCACATCTTT-1,True,CTCGTACCACATCTTT-1_contig_1,True,514,TRB,TRBV14,None,TRBJ2-3,TRBC2,True,True,CASRLGWETLYF,TGTGCCAGCAGACTGGGGTGGGAAACGCTGTATTTT,47760,10,clonotype64,clonotype64_consensus_1 +CTCGTACCACATCTTT-1,True,CTCGTACCACATCTTT-1_contig_2,True,597,TRA,TRAV7-4,None,TRAJ56,TRAC,True,True,CAASEQGGGNNKLTF,TGTGCAGCTAGTGAGCAAGGGGGAGGCAATAATAAGCTGACTTTT,28812,6,clonotype64,clonotype64_consensus_2 +CTCGTACCACATCTTT-1,True,CTCGTACCACATCTTT-1_contig_3,True,447,TRB,TRBV17,None,TRBJ1-6,None,True,False,CGVQDNSPLYF,TGTGGGGTACAGGATAATTCGCCCCTCTACTTT,4,2,clonotype64,None +CTCTGGTTCCTCCTAG-1,True,CTCTGGTTCCTCCTAG-1_contig_1,True,605,TRA,TRAV5D-4,None,TRAJ32,TRAC,True,True,CAASRGGSGNKLIF,TGTGCTGCAAGTCGTGGGGGCAGTGGCAACAAGCTCATCTTT,33256,5,clonotype65,clonotype65_consensus_1 +CTCTGGTTCCTCCTAG-1,True,CTCTGGTTCCTCCTAG-1_contig_2,True,485,TRB,TRBV10,None,None,TRBC1,False,False,None,None,42132,5,clonotype65,None +CTGATCCTCACGACTA-1,True,CTGATCCTCACGACTA-1_contig_1,True,701,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSMGTISNERLFF,TGTGCCAGCAGTATGGGGACAATTTCCAACGAAAGATTATTTTTC,15726,2,clonotype66,clonotype66_consensus_1 +CTGATCCTCACGACTA-1,True,CTGATCCTCACGACTA-1_contig_2,True,560,TRA,TRAV14D-3-DV8,None,TRAJ48,TRAC,True,True,CAALYGNEKITF,TGTGCAGCCTTGTATGGAAATGAGAAAATAACTTTT,11846,2,clonotype66,clonotype66_consensus_2 +CTGATCCTCACGACTA-1,True,CTGATCCTCACGACTA-1_contig_3,True,617,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,47380,3,clonotype66,None +CTGCGGAAGGTTCCTA-1,True,CTGCGGAAGGTTCCTA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,36602,43,clonotype5,clonotype5_consensus_3 +CTGCGGAAGGTTCCTA-1,True,CTGCGGAAGGTTCCTA-1_contig_2,True,726,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,10474,15,clonotype5,clonotype5_consensus_2 +CTGCGGAAGGTTCCTA-1,True,CTGCGGAAGGTTCCTA-1_contig_3,True,696,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,3052,3,clonotype5,clonotype5_consensus_1 +CTGCGGAAGGTTCCTA-1,True,CTGCGGAAGGTTCCTA-1_contig_4,True,369,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,9190,6,clonotype5,None +CTGCGGAAGGTTCCTA-1,True,CTGCGGAAGGTTCCTA-1_contig_5,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,17006,17,clonotype5,None +CTGCTGTAGTGACATA-1,True,CTGCTGTAGTGACATA-1_contig_1,True,507,TRA,TRAV21-DV12,None,TRAJ39,TRAC,True,True,CILRGNNNAGAKLTF,TGTATCCTGAGAGGGAATAATAATGCAGGTGCCAAGCTCACATTC,12870,2,clonotype67,clonotype67_consensus_1 +CTGCTGTAGTGACATA-1,True,CTGCTGTAGTGACATA-1_contig_2,True,567,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-4,TRBC1,True,True,CASGRDSSNERLFF,TGTGCCAGCGGTCGGGACAGCTCCAACGAAAGATTATTTTTC,13458,2,clonotype67,clonotype67_consensus_2 +CTGCTGTAGTGACATA-1,True,CTGCTGTAGTGACATA-1_contig_3,True,365,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,13706,1,clonotype67,None +CTGCTGTAGTGACATA-1,True,CTGCTGTAGTGACATA-1_contig_4,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,27640,3,clonotype67,None +CTGCTGTAGTGACATA-1,True,CTGCTGTAGTGACATA-1_contig_5,True,595,TRA,TRAV12-3,None,TRAJ52,TRAC,True,False,None,None,9076,4,clonotype67,None +CTGTGCTAGGAATTAC-1,True,CTGTGCTAGGAATTAC-1_contig_1,True,579,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-3,TRBC2,True,True,CASGDRGSSAETLYF,TGTGCCAGCGGTGACCGGGGGTCTAGTGCAGAAACGCTGTATTTT,51086,6,clonotype68,clonotype68_consensus_2 +CTGTGCTAGGAATTAC-1,True,CTGTGCTAGGAATTAC-1_contig_2,True,558,TRA,TRAV16N,None,TRAJ40,TRAC,True,True,CAMREGHTGNYKYVF,TGTGCTATGAGAGAGGGCCATACAGGAAACTACAAATACGTCTTT,24208,4,clonotype68,clonotype68_consensus_1 +CTGTGCTTCTTGGGTA-1,True,CTGTGCTTCTTGGGTA-1_contig_1,True,728,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,10926,3,clonotype2,clonotype2_consensus_1 +CTGTGCTTCTTGGGTA-1,True,CTGTGCTTCTTGGGTA-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,35224,11,clonotype2,clonotype2_consensus_2 +CTGTGCTTCTTGGGTA-1,True,CTGTGCTTCTTGGGTA-1_contig_3,True,777,TRA,TRAV3-1,None,TRAJ22,TRAC,True,False,CAVSIFW,TGCGCAGTCAGCATCTTCTGG,1970,1,clonotype2,None +CTGTGCTTCTTGGGTA-1,True,CTGTGCTTCTTGGGTA-1_contig_4,True,494,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,28460,7,clonotype2,None +CTTAACTCAGCGATCC-1,True,CTTAACTCAGCGATCC-1_contig_1,True,571,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSADQGGSYEQYF,TGCACCTGCAGTGCAGATCAGGGGGGCTCCTATGAACAGTACTTC,38872,5,clonotype69,clonotype69_consensus_1 +CTTAACTCAGCGATCC-1,True,CTTAACTCAGCGATCC-1_contig_2,True,422,TRA,TRAV13-1,None,TRAJ22,TRAC,True,False,CAMDASSGSWQLIF,TGTGCTATGGATGCATCTTCTGGCAGCTGGCAACTCATCTTT,35428,3,clonotype69,None +CTTGGCTAGCAGGTCA-1,True,CTTGGCTAGCAGGTCA-1_contig_1,True,602,TRB,TRBV3,None,TRBJ2-7,TRBC2,True,True,CASSLDGGAYEQYF,TGTGCCAGCAGCTTAGATGGGGGGGCCTATGAACAGTACTTC,37430,2,clonotype70,clonotype70_consensus_1 +CTTGGCTAGCAGGTCA-1,True,CTTGGCTAGCAGGTCA-1_contig_2,True,768,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,1942,13,clonotype70,None +GAACATCAGTCAAGCG-1,True,GAACATCAGTCAAGCG-1_contig_1,True,664,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,43612,11,clonotype17,clonotype17_consensus_1 +GAACATCAGTCAAGCG-1,True,GAACATCAGTCAAGCG-1_contig_2,True,353,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,19258,4,clonotype17,None +GAAGCAGAGGTAGCCA-1,True,GAAGCAGAGGTAGCCA-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-5,TRBC2,True,True,CASSQSGLGGQDTQYF,TGTGCCAGCAGCCAATCGGGACTGGGGGGTCAAGACACCCAGTACTTT,50832,2,clonotype71,clonotype71_consensus_1 +GAAGCAGAGGTAGCCA-1,True,GAAGCAGAGGTAGCCA-1_contig_2,True,534,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,27516,3,clonotype71,None +GAATAAGCACGGCCAT-1,True,GAATAAGCACGGCCAT-1_contig_1,True,573,TRA,TRAV2,None,TRAJ24,TRAC,True,True,CIVTDMTTASLGKLQF,TGCATTGTGACTGACATGACAACTGCCAGTTTGGGGAAACTGCAGTTT,27482,4,clonotype72,clonotype72_consensus_1 +GACAGAGGTCAGAAGC-1,True,GACAGAGGTCAGAAGC-1_contig_1,True,614,TRB,TRBV3,None,TRBJ2-1,TRBC2,True,True,CASSLERQGRDNYAEQFF,TGTGCCAGCAGCTTAGAGAGACAGGGGAGGGATAACTATGCTGAGCAGTTCTTC,73194,9,clonotype73,clonotype73_consensus_1 +GACGTTATCGCCGTGA-1,True,GACGTTATCGCCGTGA-1_contig_1,True,676,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSMGTRDTQYF,TGTGCCAGCAGTATGGGGACAAGGGACACCCAGTACTTT,57920,23,clonotype1,clonotype1_consensus_2 +GACGTTATCGCCGTGA-1,True,GACGTTATCGCCGTGA-1_contig_2,True,522,TRA,TRAV6-6,None,TRAJ45,TRAC,True,True,CALGDPAGGADRLTF,TGTGCTCTGGGTGATCCCGCAGGAGGTGCAGATAGACTCACCTTT,15060,4,clonotype1,clonotype1_consensus_1 +GACGTTATCGCCGTGA-1,True,GACGTTATCGCCGTGA-1_contig_3,True,577,TRA,TRAV5D-4,None,TRAJ50,TRAC,True,False,None,None,4938,2,clonotype1,None +GACTAACCACACTGCG-1,True,GACTAACCACACTGCG-1_contig_1,True,510,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSLGQGNTEVFF,TGTGCCAGCAGCCTGGGACAGGGGAACACAGAAGTCTTCTTT,47902,6,clonotype74,clonotype74_consensus_1 +GACTAACCACACTGCG-1,True,GACTAACCACACTGCG-1_contig_2,True,629,TRA,TRAV17,None,TRAJ16,TRAC,True,True,CALSTSSGQKLVF,TGTGCACTGTCAACTTCAAGTGGCCAGAAGCTGGTTTTT,8046,5,clonotype74,clonotype74_consensus_2 +GACTAACCACACTGCG-1,True,GACTAACCACACTGCG-1_contig_3,True,504,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,19846,6,clonotype74,None +GACTACAGTCGACTAT-1,True,GACTACAGTCGACTAT-1_contig_1,True,580,TRB,TRBV13-3,None,TRBJ2-3,TRBC2,True,True,CASSRDREALYF,TGTGCCAGCAGCCGGGACAGGGAGGCGCTGTATTTT,41272,6,clonotype75,clonotype75_consensus_2 +GACTACAGTCGACTAT-1,True,GACTACAGTCGACTAT-1_contig_2,True,516,TRA,TRAV6-6,None,TRAJ15,TRAC,True,True,CALSELQGGRALIF,TGTGCTCTGAGTGAACTCCAGGGAGGCAGAGCTCTGATATTT,9988,4,clonotype75,clonotype75_consensus_1 +GACTACAGTCGACTAT-1,True,GACTACAGTCGACTAT-1_contig_3,True,545,TRB,TRBV16,None,TRBJ1-2,TRBC1,True,False,CKQLQGNSDYTF,TGCAAGCAGCTTCAGGGAAACTCCGACTACACCTTC,25106,3,clonotype75,None +GACTGCGGTGCCTGCA-1,True,GACTGCGGTGCCTGCA-1_contig_1,True,507,TRA,TRAV21-DV12,None,TRAJ56,TRAC,True,True,CILRGATGGNNKLTF,TGTATCCTGAGGGGGGCTACTGGAGGCAATAATAAGCTGACTTTT,64194,11,clonotype19,clonotype19_consensus_1 +GACTGCGGTGCCTGCA-1,True,GACTGCGGTGCCTGCA-1_contig_2,True,562,TRB,TRBV2,None,TRBJ2-4,TRBC2,True,True,CASSQRQGQNTLYF,TGTGCCAGCAGCCAAAGACAGGGCCAAAACACCTTGTACTTT,9752,3,clonotype19,clonotype19_consensus_2 +GACTGCGGTGCGATAG-1,True,GACTGCGGTGCGATAG-1_contig_1,True,586,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCCGGGCAAATGCTTACAAAGTCATCTTT,43650,5,clonotype23,clonotype23_consensus_1 +GACTGCGGTGCGATAG-1,True,GACTGCGGTGCGATAG-1_contig_2,True,815,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,3804,1,clonotype23,None +GACTGCGGTGCGATAG-1,True,GACTGCGGTGCGATAG-1_contig_3,True,360,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,27412,3,clonotype23,None +GACTGCGGTGCGATAG-1,True,GACTGCGGTGCGATAG-1_contig_4,True,562,TRA,TRAV8N-2,None,TRAJ52,TRAC,True,False,None,None,2818,3,clonotype23,None +GAGGTGAAGACCACGA-1,True,GAGGTGAAGACCACGA-1_contig_1,True,516,TRB,TRBV17,None,TRBJ1-6,TRBC1,True,True,CGVQDNSPLYF,TGTGGGGTACAGGATAATTCGCCCCTCTACTTT,50674,9,clonotype8,clonotype8_consensus_3 +GAGGTGAAGACCACGA-1,True,GAGGTGAAGACCACGA-1_contig_2,True,534,TRB,TRBV13-3,None,TRBJ1-3,TRBC1,True,True,CASSGDRGGNTLYF,TGTGCCAGCAGTGGGGACAGGGGTGGAAATACGCTCTATTTT,20656,5,clonotype8,clonotype8_consensus_1 +GAGGTGAAGACCACGA-1,True,GAGGTGAAGACCACGA-1_contig_3,True,536,TRA,TRAV16N,None,TRAJ56,TRAC,True,True,CAMREGPGGNNKLTF,TGTGCTATGAGAGAGGGACCTGGAGGCAATAATAAGCTGACTTTT,5092,1,clonotype8,clonotype8_consensus_2 +GATTCAGTCAGCAACT-1,True,GATTCAGTCAGCAACT-1_contig_1,True,560,TRA,TRAV3-3,None,TRAJ49,TRAC,True,True,CAVSEGYQNFYF,TGCGCAGTCAGTGAGGGTTACCAGAACTTCTATTTT,36920,9,clonotype76,clonotype76_consensus_2 +GATTCAGTCAGCAACT-1,True,GATTCAGTCAGCAACT-1_contig_2,True,575,TRA,TRAV13-1,None,TRAJ33,TRAC,True,True,CAMERSNYQLIW,TGTGCTATGGAAAGGAGCAACTATCAGTTGATCTGG,31992,7,clonotype76,clonotype76_consensus_1 +GATTCAGTCAGCAACT-1,True,GATTCAGTCAGCAACT-1_contig_3,True,564,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGGTGVYEQYF,TGTGCCAGCGGAGGGACTGGGGTCTATGAACAGTACTTC,8660,3,clonotype76,clonotype76_consensus_3 +GCAGCCATCATCTGTT-1,True,GCAGCCATCATCTGTT-1_contig_1,True,544,TRB,TRBV10,None,TRBJ2-1,TRBC2,True,True,CASSYWGGDAEQFF,TGTGCCAGCAGCTACTGGGGGGGCGATGCTGAGCAGTTCTTC,46684,5,clonotype77,clonotype77_consensus_1 +GCAGCCATCATCTGTT-1,True,GCAGCCATCATCTGTT-1_contig_2,True,386,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,18438,3,clonotype77,None +GCAGCCATCATCTGTT-1,True,GCAGCCATCATCTGTT-1_contig_3,True,569,TRA,TRAV3-4,None,TRAJ48,TRAC,True,False,None,None,11398,4,clonotype77,None +GCATACAAGCTGCAAG-1,True,GCATACAAGCTGCAAG-1_contig_1,True,594,TRA,TRAV7D-4,None,TRAJ40,TRAC,True,True,CAASEGTGNYKYVF,TGTGCAGCTAGTGAAGGTACAGGAAACTACAAATACGTCTTT,60886,9,clonotype78,clonotype78_consensus_1 +GCATACAAGTGTACTC-1,True,GCATACAAGTGTACTC-1_contig_1,True,576,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-2,TRBC2,True,True,CASGGDWGGANTGQLYF,TGTGCCAGCGGCGGGGACTGGGGGGGTGCAAACACCGGGCAGCTCTACTTT,22092,8,clonotype79,clonotype79_consensus_1 +GCATACAGTGGCAAAC-1,True,GCATACAGTGGCAAAC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,6206,1,clonotype2,clonotype2_consensus_2 +GCATACAGTGGCAAAC-1,True,GCATACAGTGGCAAAC-1_contig_2,True,724,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,19092,4,clonotype2,clonotype2_consensus_1 +GCATACAGTGGCAAAC-1,True,GCATACAGTGGCAAAC-1_contig_3,True,369,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,False,CQQYEQGLANTEVFF,TGCCAGCAGTATGAACAGGGGCTTGCAAACACAGAAGTCTTCTTT,16396,2,clonotype2,None +GCATACAGTGGCAAAC-1,True,GCATACAGTGGCAAAC-1_contig_4,True,415,TRA,TRAV3-1,None,TRAJ22,TRAC,True,False,CAVSIFW,TGCGCAGTCAGCATCTTCTGG,9512,1,clonotype2,None +GCATACAGTGGCAAAC-1,True,GCATACAGTGGCAAAC-1_contig_5,True,376,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,26138,3,clonotype2,None +GCATGATCAGTCGTGC-1,True,GCATGATCAGTCGTGC-1_contig_1,True,574,TRA,TRAV13-1,None,TRAJ37,TRAC,True,True,CAMGAGNTRKLIF,TGTGCTATGGGGGCAGGCAATACTAGAAAACTCATCTTT,68190,3,clonotype80,clonotype80_consensus_1 +GCATGCGCATTAGGCT-1,True,GCATGCGCATTAGGCT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,69846,13,clonotype4,clonotype4_consensus_2 +GCATGCGCATTAGGCT-1,True,GCATGCGCATTAGGCT-1_contig_2,True,642,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,3264,1,clonotype4,clonotype4_consensus_1 +GCCAAATGTTAAGATG-1,True,GCCAAATGTTAAGATG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGGAACACAGAAGTCTTCTTT,48640,10,clonotype3,clonotype3_consensus_2 +GCCAAATGTTAAGATG-1,True,GCCAAATGTTAAGATG-1_contig_2,True,726,TRA,TRAV9-4,None,TRAJ22,TRAC,True,True,CAVTSSGSWQLIF,TGTGCTGTGACATCTTCTGGCAGCTGGCAACTCATCTTT,24670,3,clonotype3,clonotype3_consensus_1 +GCGAGAATCCGCAGTG-1,True,GCGAGAATCCGCAGTG-1_contig_1,True,731,TRB,TRBV12-1,None,TRBJ2-1,TRBC2,True,True,CASSVDWGGDAEQFF,TGTGCCAGCTCGGTCGACTGGGGGGGGGATGCTGAGCAGTTCTTC,53110,5,clonotype81,clonotype81_consensus_1 +GCGAGAATCCGCAGTG-1,True,GCGAGAATCCGCAGTG-1_contig_2,True,550,TRA,TRAV3-3,None,TRAJ50,TRAC,True,True,CAVSPLIASSSFSKLVF,TGCGCAGTCAGTCCCCTTATAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,23776,4,clonotype81,clonotype81_consensus_2 +GCGCAGTCACATGGGA-1,True,GCGCAGTCACATGGGA-1_contig_1,True,566,TRB,TRBV29,None,TRBJ2-7,TRBC2,True,True,CASSLRDRGIEQYF,TGTGCTAGCAGTTTAAGGGACAGGGGGATTGAACAGTACTTC,69102,9,clonotype82,clonotype82_consensus_1 +GCGCGATTCACCACCT-1,True,GCGCGATTCACCACCT-1_contig_1,True,528,TRA,TRAV7-3,None,TRAJ40,TRAC,True,True,CAVSMGTGNYKYVF,TGTGCAGTGAGCATGGGTACAGGAAACTACAAATACGTCTTT,13606,3,clonotype83,clonotype83_consensus_1 +GCGCGATTCACCACCT-1,True,GCGCGATTCACCACCT-1_contig_2,True,588,TRA,TRAV13-1,None,TRAJ37,TRAC,True,True,CAMGAGNTRKLIF,TGTGCTATGGGGGCAGGCAATACTAGAAAACTCATCTTT,34312,8,clonotype83,clonotype83_consensus_3 +GCGCGATTCACCACCT-1,True,GCGCGATTCACCACCT-1_contig_3,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGATTCCTATGAACAGTACTTC,26532,10,clonotype83,clonotype83_consensus_2 +GCTTGAATCAATAAGG-1,True,GCTTGAATCAATAAGG-1_contig_1,True,600,TRA,TRAV12D-2,None,TRAJ9,TRAC,True,True,CALSVRNMGYKLTF,TGTGCTCTGAGTGTCAGGAACATGGGCTACAAACTTACCTTC,13062,4,clonotype84,clonotype84_consensus_2 +GCTTGAATCAATAAGG-1,True,GCTTGAATCAATAAGG-1_contig_2,True,647,TRB,TRBV19,None,TRBJ2-5,TRBC2,True,True,CASSILGQDTQYF,TGTGCCAGCAGTATTCTGGGGCAAGACACCCAGTACTTT,55706,12,clonotype84,clonotype84_consensus_1 +GCTTGAATCAATAAGG-1,True,GCTTGAATCAATAAGG-1_contig_3,True,518,TRB,TRBV14,None,TRBJ1-3,TRBC1,True,False,None,None,4580,2,clonotype84,None +GGAACTTGTCGCATAT-1,True,GGAACTTGTCGCATAT-1_contig_1,True,544,TRB,TRBV10,None,TRBJ1-3,TRBC1,True,True,CASSLTGVGNTLYF,TGTGCCAGCAGCTTGACAGGGGTCGGAAATACGCTCTATTTT,7010,4,clonotype85,clonotype85_consensus_1 +GGAACTTGTCGCATAT-1,True,GGAACTTGTCGCATAT-1_contig_2,True,432,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,59918,23,clonotype85,None +GGAGCAATCGCCGTGA-1,True,GGAGCAATCGCCGTGA-1_contig_1,True,510,TRB,TRBV29,None,TRBJ2-7,TRBC2,True,True,CASSGDRGHEQYF,TGTGCTAGCAGTGGGGACAGGGGTCATGAACAGTACTTC,29626,18,clonotype13,clonotype13_consensus_1 +GGAGCAATCGCCGTGA-1,True,GGAGCAATCGCCGTGA-1_contig_2,True,581,TRA,TRAV13-1,None,TRAJ6,TRAC,True,True,CAMATSGGNYKPTF,TGTGCTATGGCCACCTCAGGAGGAAACTACAAACCTACGTTT,18328,10,clonotype13,clonotype13_consensus_2 +GGAGCAATCGCCGTGA-1,True,GGAGCAATCGCCGTGA-1_contig_3,True,532,TRB,TRBV20,TRBD1,TRBJ2-7,TRBC2,True,True,CGVPRDRGREQYF,TGTGGTGTCCCCCGGGACAGGGGGCGCGAACAGTACTTC,22382,15,clonotype13,clonotype13_consensus_3 +GGAGCAATCGCCGTGA-1,True,GGAGCAATCGCCGTGA-1_contig_4,True,557,TRA,TRAV4-3,None,TRAJ15,TRAC,True,False,None,None,7106,5,clonotype13,None +GGGACCTAGAACAATC-1,True,GGGACCTAGAACAATC-1_contig_1,True,600,TRA,TRAV14D-3-DV8,None,TRAJ48,TRAC,True,True,CAATNYGNEKITF,TGTGCAGCAACCAACTATGGAAATGAGAAAATAACTTTT,9386,4,clonotype86,clonotype86_consensus_1 +GGGACCTAGAACAATC-1,True,GGGACCTAGAACAATC-1_contig_2,True,571,TRB,TRBV1,None,TRBJ2-3,TRBC2,True,True,CTCSADTTSAETLYF,TGCACCTGCAGTGCTGACACCACTAGTGCAGAAACGCTGTATTTT,44674,21,clonotype86,clonotype86_consensus_2 +GGGACCTAGAACAATC-1,True,GGGACCTAGAACAATC-1_contig_3,True,331,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,19552,8,clonotype86,None +GGGACCTAGAACAATC-1,True,GGGACCTAGAACAATC-1_contig_4,True,711,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,2282,4,clonotype86,None +GGGACCTGTAATCGTC-1,True,GGGACCTGTAATCGTC-1_contig_1,True,567,TRA,TRAV4D-4,None,TRAJ6,TRAC,True,True,CAALTSGGNYKPTF,TGTGCTGCCCTCACCTCAGGAGGAAACTACAAACCTACGTTT,45458,3,clonotype87,clonotype87_consensus_1 +GGGACCTGTAATCGTC-1,True,GGGACCTGTAATCGTC-1_contig_2,True,502,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSEKYEQYF,TGTGCCAGCAGTGAGAAATATGAACAGTACTTC,27504,4,clonotype87,clonotype87_consensus_2 +GGGACCTGTACGACCC-1,True,GGGACCTGTACGACCC-1_contig_1,True,531,TRB,TRBV13-3,None,TRBJ2-3,TRBC2,True,True,CASSGDRDETLYF,TGTGCCAGCAGTGGAGACAGGGACGAAACGCTGTATTTT,55800,7,clonotype88,clonotype88_consensus_1 +GGGACCTGTACGACCC-1,True,GGGACCTGTACGACCC-1_contig_2,True,641,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,False,None,None,21342,2,clonotype88,None +GGGAGATCATTGGGCC-1,True,GGGAGATCATTGGGCC-1_contig_1,True,564,TRA,TRAV4-4-DV10,None,TRAJ31,TRAC,True,True,CAAEYNNNRIFF,TGTGCTGCTGAGTATAACAATAACAGAATCTTCTTT,25418,11,clonotype89,clonotype89_consensus_1 +GGGAGATCATTGGGCC-1,True,GGGAGATCATTGGGCC-1_contig_2,True,568,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,True,CTCSAGQGAGEVFF,TGCACCTGCAGTGCAGGGCAGGGGGCGGGTGAAGTCTTCTTT,39696,21,clonotype89,clonotype89_consensus_2 +GGGAGATCATTGGGCC-1,True,GGGAGATCATTGGGCC-1_contig_3,True,568,TRA,TRAV14D-1,None,TRAJ38,TRAC,True,True,CAASLLNVGDNSKLIW,TGTGCAGCAAGTCTCCTTAATGTTGGTGACAACAGTAAGCTGATTTGG,12958,6,clonotype89,clonotype89_consensus_3 +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_1,True,565,TRB,TRBV2,None,TRBJ1-1,TRBC1,True,True,CASSQEEGANTEVFF,TGTGCCAGCAGCCAAGAGGAGGGTGCAAACACAGAAGTCTTCTTT,13218,5,clonotype6,clonotype6_consensus_2 +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_2,True,558,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCCGGGCAAATGCTTACAAAGTCATCTTT,22384,6,clonotype6,clonotype6_consensus_1 +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_3,True,369,TRB,None,None,TRBJ2-4,TRBC2,False,False,None,None,3504,1,clonotype6,None +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_4,True,562,TRA,TRAV8N-2,None,TRAJ52,TRAC,True,False,None,None,8320,2,clonotype6,None +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_5,True,303,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,10444,2,clonotype6,None +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_6,True,373,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,12726,3,clonotype6,None +GGTGTTAGTTATCACG-1,True,GGTGTTAGTTATCACG-1_contig_7,True,334,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,7342,1,clonotype6,None +GTAACGTAGTCCGGTC-1,True,GTAACGTAGTCCGGTC-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,13958,11,clonotype90,clonotype90_consensus_3 +GTAACGTAGTCCGGTC-1,True,GTAACGTAGTCCGGTC-1_contig_2,True,568,TRB,TRBV1,None,TRBJ2-5,TRBC2,True,True,CTCSAELGQDTQYF,TGCACCTGCAGTGCAGAGCTGGGGCAAGACACCCAGTACTTT,32178,27,clonotype90,clonotype90_consensus_1 +GTAACGTAGTCCGGTC-1,True,GTAACGTAGTCCGGTC-1_contig_3,True,724,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,3282,4,clonotype90,clonotype90_consensus_2 +GTAACGTAGTCCGGTC-1,True,GTAACGTAGTCCGGTC-1_contig_4,True,475,TRA,TRAV11,None,TRAJ18,TRAC,True,False,None,None,5134,5,clonotype90,None +GTAACGTAGTCCGGTC-1,True,GTAACGTAGTCCGGTC-1_contig_5,True,697,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,10986,8,clonotype90,None +GTAACGTAGTCCGGTC-1,True,GTAACGTAGTCCGGTC-1_contig_6,True,590,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,False,CQQYEQGLANTEVFF,TGCCAGCAGTATGAACAGGGGCTTGCAAACACAGAAGTCTTCTTT,8562,12,clonotype90,None +GTACTTTCAGAGTGTG-1,True,GTACTTTCAGAGTGTG-1_contig_1,True,545,TRB,TRBV29,None,TRBJ2-4,TRBC2,True,True,CASSFDTLYF,TGTGCTAGCAGTTTCGACACCTTGTACTTT,62878,9,clonotype91,clonotype91_consensus_1 +GTACTTTCAGAGTGTG-1,True,GTACTTTCAGAGTGTG-1_contig_2,True,432,TRA,TRAV13-1,None,TRAJ53,TRAC,True,False,None,None,15476,3,clonotype91,None +GTACTTTGTAGGCTGA-1,True,GTACTTTGTAGGCTGA-1_contig_1,True,561,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGSGTNAYKVIF,TGTGCTATGAGAGAGGGCTCAGGGACAAATGCTTACAAAGTCATCTTT,18720,15,clonotype24,clonotype24_consensus_2 +GTACTTTGTAGGCTGA-1,True,GTACTTTGTAGGCTGA-1_contig_2,True,718,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSISRGNTEVFF,TGTGCCAGCAGTATAAGCAGGGGAAACACAGAAGTCTTCTTT,37454,25,clonotype24,clonotype24_consensus_1 +GTACTTTGTAGGCTGA-1,True,GTACTTTGTAGGCTGA-1_contig_3,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,12060,9,clonotype24,None +GTACTTTGTAGGCTGA-1,True,GTACTTTGTAGGCTGA-1_contig_4,True,504,TRA,TRAV9-4,None,TRAJ33,TRAC,True,False,CSERGSNYQLIW,TGCTCTGAGCGCGGGAGCAACTATCAGTTGATCTGG,6764,5,clonotype24,None +GTAGTCACATCGACGC-1,True,GTAGTCACATCGACGC-1_contig_1,True,524,TRA,TRAV6-4,None,TRAJ50,TRAC,True,True,CALVASSSFSKLVF,TGTGCTCTGGTAGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,35970,3,clonotype92,clonotype92_consensus_1 +GTAGTCACATCGACGC-1,True,GTAGTCACATCGACGC-1_contig_2,True,648,TRB,TRBV2,None,TRBJ2-3,TRBC2,True,True,CASSQERGTAETLYF,TGTGCCAGCAGCCAAGAGAGGGGAACGGCAGAAACGCTGTATTTT,40162,4,clonotype92,clonotype92_consensus_2 +GTCGGGTCATTCACTT-1,True,GTCGGGTCATTCACTT-1_contig_1,True,588,TRB,TRBV17,None,TRBJ1-6,TRBC1,True,True,CGVQDNSPLYF,TGTGGGGTACAGGATAATTCGCCCCTCTACTTT,14776,1,clonotype93,clonotype93_consensus_2 +GTCGGGTCATTCACTT-1,True,GTCGGGTCATTCACTT-1_contig_2,True,539,TRB,TRBV13-3,None,TRBJ1-3,TRBC1,True,True,CASSGDRGGNTLYF,TGTGCCAGCAGTGGGGACAGGGGTGGAAATACGCTCTATTTT,34816,3,clonotype93,clonotype93_consensus_1 +GTCGGGTCATTCACTT-1,True,GTCGGGTCATTCACTT-1_contig_3,True,532,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,19374,4,clonotype93,None +GTTTCTACATTTGCTT-1,True,GTTTCTACATTTGCTT-1_contig_1,True,571,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGSGTNAYKVIF,TGTGCTATGAGAGAGGGCTCAGGGACAAATGCTTACAAAGTCATCTTT,36510,10,clonotype24,clonotype24_consensus_2 +GTTTCTACATTTGCTT-1,True,GTTTCTACATTTGCTT-1_contig_2,True,718,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSISRGNTEVFF,TGTGCCAGCAGTATAAGCAGGGGAAACACAGAAGTCTTCTTT,34762,7,clonotype24,clonotype24_consensus_1 +TAAACCGGTGTTAAGA-1,True,TAAACCGGTGTTAAGA-1_contig_1,True,557,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-7,TRBC2,True,True,CASGELGGREQYF,TGTGCCAGCGGTGAACTGGGGGGGCGTGAACAGTACTTC,33990,11,clonotype94,clonotype94_consensus_2 +TAAACCGGTGTTAAGA-1,True,TAAACCGGTGTTAAGA-1_contig_2,True,597,TRA,TRAV5D-4,None,TRAJ49,TRAC,True,True,CAAREAGYQNFYF,TGTGCTGCAAGGGAGGCGGGTTACCAGAACTTCTATTTT,33458,12,clonotype94,clonotype94_consensus_1 +TAAACCGGTGTTAAGA-1,True,TAAACCGGTGTTAAGA-1_contig_3,True,443,TRA,None,None,TRAJ41,TRAC,False,False,None,None,6154,1,clonotype94,None +TAAGCGTCATTCTCAT-1,True,TAAGCGTCATTCTCAT-1_contig_1,True,583,TRA,TRAV12D-2,None,TRAJ17,TRAC,True,True,CDPTNSAGNKLTF,TGTGACCCTACTAACAGTGCAGGGAACAAGCTAACTTTT,9674,2,clonotype95,clonotype95_consensus_2 +TAAGCGTCATTCTCAT-1,True,TAAGCGTCATTCTCAT-1_contig_2,True,521,TRB,TRBV13-1,None,TRBJ2-2,TRBC2,True,True,CASSDAGGDTGQLYF,TGTGCCAGCAGTGATGCAGGGGGTGACACCGGGCAGCTCTACTTT,45494,7,clonotype95,clonotype95_consensus_1 +TAAGCGTCATTCTCAT-1,True,TAAGCGTCATTCTCAT-1_contig_3,True,558,TRA,TRAV5-1,None,TRAJ2,TRAC,True,True,CSASMDTGGLSGKLTF,TGCTCAGCAAGTATGGATACTGGAGGACTAAGTGGTAAATTAACATTC,5894,2,clonotype95,clonotype95_consensus_3 +TAAGCGTCATTCTCAT-1,True,TAAGCGTCATTCTCAT-1_contig_4,True,610,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,14844,2,clonotype95,None +TAAGTGCAGAGTGACC-1,True,TAAGTGCAGAGTGACC-1_contig_1,True,562,TRB,TRBV1,None,TRBJ1-2,TRBC1,True,True,CTCSAGNSDYTF,TGCACCTGCAGTGCAGGGAACTCCGACTACACCTTC,15994,4,clonotype96,clonotype96_consensus_2 +TAAGTGCAGAGTGACC-1,True,TAAGTGCAGAGTGACC-1_contig_2,True,539,TRA,TRAV9-1,None,TRAJ43,TRAC,True,True,CAVLNNNNAPRF,TGTGCTGTCCTCAATAACAACAATGCCCCACGATTT,5778,2,clonotype96,clonotype96_consensus_1 +TAAGTGCAGAGTGACC-1,True,TAAGTGCAGAGTGACC-1_contig_3,True,309,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,41500,7,clonotype96,None +TAAGTGCAGAGTGACC-1,True,TAAGTGCAGAGTGACC-1_contig_4,True,362,TRB,TRBV19,None,TRBJ2-7,TRBC2,True,False,None,None,3896,3,clonotype96,None +TACGGGCTCTTAGAGC-1,True,TACGGGCTCTTAGAGC-1_contig_1,True,521,TRA,TRAV13-1,None,TRAJ6,TRAC,True,True,CAMATSGGNYKPTF,TGTGCTATGGCCACCTCAGGAGGAAACTACAAACCTACGTTT,14060,6,clonotype13,clonotype13_consensus_2 +TACGGGCTCTTAGAGC-1,True,TACGGGCTCTTAGAGC-1_contig_2,True,570,TRB,TRBV20,TRBD1,TRBJ2-7,TRBC2,True,True,CGVPRDRGREQYF,TGTGGTGTCCCCCGGGACAGGGGGCGCGAACAGTACTTC,11780,7,clonotype13,clonotype13_consensus_3 +TACGGGCTCTTAGAGC-1,True,TACGGGCTCTTAGAGC-1_contig_3,True,515,TRB,TRBV29,None,TRBJ2-7,TRBC2,True,True,CASSGDRGHEQYF,TGTGCTAGCAGTGGGGACAGGGGTCATGAACAGTACTTC,41492,18,clonotype13,clonotype13_consensus_1 +TACGGGCTCTTAGAGC-1,True,TACGGGCTCTTAGAGC-1_contig_4,True,557,TRA,TRAV4-3,None,TRAJ15,TRAC,True,False,None,None,11180,5,clonotype13,None +TACTCGCGTGCAGGTA-1,True,TACTCGCGTGCAGGTA-1_contig_1,True,514,TRB,TRBV13-1,None,TRBJ1-3,TRBC1,True,True,CASSDLGNSGNTLYF,TGTGCCAGCAGTGATCTGGGGAATTCTGGAAATACGCTCTATTTT,70978,21,clonotype97,clonotype97_consensus_1 +TAGACCATCCAAACAC-1,True,TAGACCATCCAAACAC-1_contig_1,True,571,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-4,TRBC1,True,True,CASGDAGEANERLFF,TGTGCCAGCGGTGATGCCGGGGAAGCCAACGAAAGATTATTTTTC,54426,8,clonotype98,clonotype98_consensus_1 +TAGACCATCCAAACAC-1,True,TAGACCATCCAAACAC-1_contig_2,True,538,TRA,TRAV11,None,TRAJ18,TRAC,True,True,CVVGDRGSALGRLHF,TGTGTGGTGGGCGATAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,5774,1,clonotype98,clonotype98_consensus_2 +TAGACCATCCAAACAC-1,True,TAGACCATCCAAACAC-1_contig_3,True,510,TRA,TRAV12-1,None,TRAJ21,TRAC,True,False,CPVLLCSESPNYNVLYF,TGCCCTGTACTACTGTGCTCTGAGTCGCCTAATTACAACGTGCTTTACTTC,7552,1,clonotype98,None +TAGGCATAGGCCCTCA-1,True,TAGGCATAGGCCCTCA-1_contig_1,True,660,TRB,TRBV2,None,TRBJ1-1,TRBC1,True,True,CASSQEEGANTEVFF,TGTGCCAGCAGCCAAGAGGAGGGTGCAAACACAGAAGTCTTCTTT,17632,6,clonotype6,clonotype6_consensus_2 +TAGGCATAGGCCCTCA-1,True,TAGGCATAGGCCCTCA-1_contig_2,True,548,TRA,TRAV16N,None,TRAJ30,TRAC,True,True,CAMREGRANAYKVIF,TGTGCTATGAGAGAGGGCCGGGCAAATGCTTACAAAGTCATCTTT,18706,4,clonotype6,clonotype6_consensus_1 +TAGGCATAGGCCCTCA-1,True,TAGGCATAGGCCCTCA-1_contig_3,True,332,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,31648,10,clonotype6,None +TAGGCATAGGCCCTCA-1,True,TAGGCATAGGCCCTCA-1_contig_4,True,388,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,8546,2,clonotype6,None +TCAGATGTCCGGGTGT-1,True,TCAGATGTCCGGGTGT-1_contig_1,True,557,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-2,TRBC1,True,True,CASGDNRDSDYTF,TGTGCCAGCGGTGATAACAGGGACTCCGACTACACCTTC,75410,6,clonotype99,clonotype99_consensus_1 +TCAGGATAGCTAGTCT-1,True,TCAGGATAGCTAGTCT-1_contig_1,True,678,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSIGGASNERLFF,TGTGCCAGCAGTATAGGGGGGGCGTCCAACGAAAGATTATTTTTC,68580,17,clonotype10,clonotype10_consensus_2 +TCAGGATAGCTAGTCT-1,True,TCAGGATAGCTAGTCT-1_contig_2,True,538,TRA,TRAV13-1,None,TRAJ53,TRAC,True,True,CAILSGGSNYKLTF,TGTGCTATCCTCAGTGGAGGCAGCAATTACAAACTGACATTT,5434,3,clonotype10,clonotype10_consensus_1 +TCAGGATGTGCACCAC-1,True,TCAGGATGTGCACCAC-1_contig_1,True,501,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,24670,19,clonotype2,clonotype2_consensus_2 +TCAGGATGTGCACCAC-1,True,TCAGGATGTGCACCAC-1_contig_2,True,715,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,3452,3,clonotype2,clonotype2_consensus_1 +TCAGGATGTGCACCAC-1,True,TCAGGATGTGCACCAC-1_contig_3,True,416,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,5786,3,clonotype2,None +TCAGGATGTGCACCAC-1,True,TCAGGATGTGCACCAC-1_contig_4,True,598,TRA,TRAV3-1,None,TRAJ22,TRAC,True,False,CAVSIFW,TGCGCAGTCAGCATCTTCTGG,2494,5,clonotype2,None +TCAGGATGTGCACCAC-1,True,TCAGGATGTGCACCAC-1_contig_5,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,27044,16,clonotype2,None +TCAGGATGTGCACCAC-1,True,TCAGGATGTGCACCAC-1_contig_6,True,545,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,14192,11,clonotype2,None +TCGGGACGTGACGCCT-1,True,TCGGGACGTGACGCCT-1_contig_1,True,522,TRB,TRBV5,None,TRBJ2-1,TRBC2,True,True,CASSQGQGDYAEQFF,TGTGCCAGCAGCCAAGGACAGGGGGACTATGCTGAGCAGTTCTTC,27158,9,clonotype100,clonotype100_consensus_2 +TCGGGACGTGACGCCT-1,True,TCGGGACGTGACGCCT-1_contig_2,True,699,TRA,TRAV9D-2,None,TRAJ43,TRAC,True,True,CAVGNNNAPRF,TGTGCTGTGGGAAACAACAATGCCCCACGATTT,13382,10,clonotype100,clonotype100_consensus_1 +TCGGGACGTGACGCCT-1,True,TCGGGACGTGACGCCT-1_contig_3,True,507,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,20020,6,clonotype100,clonotype100_consensus_3 +TCGGGACGTGACGCCT-1,True,TCGGGACGTGACGCCT-1_contig_4,True,621,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,15176,4,clonotype100,None +TCGTAGACATTTGCTT-1,True,TCGTAGACATTTGCTT-1_contig_1,True,576,TRB,TRBV13-3,None,TRBJ2-1,TRBC2,True,True,CASSDDWGSYAEQFF,TGTGCCAGCAGTGATGACTGGGGGAGCTATGCTGAGCAGTTCTTC,18000,4,clonotype101,clonotype101_consensus_1 +TCGTAGACATTTGCTT-1,True,TCGTAGACATTTGCTT-1_contig_2,True,526,TRB,TRBV14,None,TRBJ2-2,TRBC2,True,True,CASSPRDRENTGQLYF,TGTGCCAGCAGCCCCCGGGACAGGGAAAACACCGGGCAGCTCTACTTT,31136,8,clonotype101,clonotype101_consensus_2 +TCGTAGACATTTGCTT-1,True,TCGTAGACATTTGCTT-1_contig_3,True,597,TRA,TRAV14D-3-DV8,None,TRAJ57,TRAC,True,True,CAASDQGGSAKLIF,TGTGCAGCAAGTGATCAAGGAGGGTCTGCGAAGCTCATCTTT,2952,1,clonotype101,clonotype101_consensus_4 +TCGTAGACATTTGCTT-1,True,TCGTAGACATTTGCTT-1_contig_4,True,538,TRA,TRAV19,None,TRAJ56,TRAC,True,True,CAAGGATGGNNKLTF,TGCGCAGCAGGGGGGGCTACTGGAGGCAATAATAAGCTGACTTTT,12826,2,clonotype101,clonotype101_consensus_3 +TCGTAGACATTTGCTT-1,True,TCGTAGACATTTGCTT-1_contig_5,True,320,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,4568,1,clonotype101,None +TCGTAGACATTTGCTT-1,True,TCGTAGACATTTGCTT-1_contig_6,True,609,TRB,TRBV5,None,TRBJ1-4,TRBC1,True,False,None,None,6856,2,clonotype101,None +TCTGGAACACAACGTT-1,True,TCTGGAACACAACGTT-1_contig_1,True,572,TRA,TRAV14D-3-DV8,None,TRAJ26,TRAC,True,True,CAASYYAQGLTF,TGTGCAGCAAGTTACTATGCCCAGGGATTAACCTTC,1044,1,clonotype102,clonotype102_consensus_2 +TCTGGAACACAACGTT-1,True,TCTGGAACACAACGTT-1_contig_2,True,710,TRB,TRBV19,None,TRBJ1-6,TRBC1,True,True,CASSLRDRENSPLYF,TGTGCCAGCAGTCTCCGGGACAGGGAGAATTCGCCCCTCTACTTT,10986,7,clonotype102,clonotype102_consensus_1 +TCTGGAACACAACGTT-1,True,TCTGGAACACAACGTT-1_contig_3,True,308,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,56808,21,clonotype102,None +TCTGGAACACAACGTT-1,True,TCTGGAACACAACGTT-1_contig_4,True,353,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,2144,1,clonotype102,None +TCTGGAACACAACGTT-1,True,TCTGGAACACAACGTT-1_contig_5,True,448,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,2392,1,clonotype102,None +TGACAACCAACTGGCC-1,True,TGACAACCAACTGGCC-1_contig_1,True,599,TRA,TRAV13-1,None,TRAJ53,TRAC,True,True,CAILSGGSNYKLTF,TGTGCTATCCTCAGTGGAGGCAGCAATTACAAACTGACATTT,35056,10,clonotype10,clonotype10_consensus_1 +TGACAACCAACTGGCC-1,True,TGACAACCAACTGGCC-1_contig_2,True,721,TRB,TRBV19,None,TRBJ1-4,TRBC1,True,True,CASSIGGASNERLFF,TGTGCCAGCAGTATAGGGGGGGCGTCCAACGAAAGATTATTTTTC,9738,5,clonotype10,clonotype10_consensus_2 +TGACAACCAACTGGCC-1,True,TGACAACCAACTGGCC-1_contig_3,True,443,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,19092,2,clonotype10,None +TGACAACCAACTGGCC-1,True,TGACAACCAACTGGCC-1_contig_4,True,306,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,13086,2,clonotype10,None +TGACAACTCGTCTGAA-1,True,TGACAACTCGTCTGAA-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,19898,5,clonotype5,clonotype5_consensus_3 +TGACAACTCGTCTGAA-1,True,TGACAACTCGTCTGAA-1_contig_2,True,721,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,12844,3,clonotype5,clonotype5_consensus_2 +TGACAACTCGTCTGAA-1,True,TGACAACTCGTCTGAA-1_contig_3,True,725,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,3646,2,clonotype5,clonotype5_consensus_1 +TGACAACTCGTCTGAA-1,True,TGACAACTCGTCTGAA-1_contig_4,True,334,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,17314,3,clonotype5,None +TGACAACTCGTCTGAA-1,True,TGACAACTCGTCTGAA-1_contig_5,True,407,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,22012,6,clonotype5,None +TGACTAGGTTCCCGAG-1,True,TGACTAGGTTCCCGAG-1_contig_1,True,549,TRA,TRAV7-3,None,TRAJ12,TRAC,True,True,CAVSRGTGGYKVVF,TGTGCAGTGAGCAGGGGGACTGGAGGCTATAAAGTGGTCTTT,22548,7,clonotype103,clonotype103_consensus_2 +TGACTAGGTTCCCGAG-1,True,TGACTAGGTTCCCGAG-1_contig_2,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCCGGACTGGGGGACTCCTATGAACAGTACTTC,13088,8,clonotype103,clonotype103_consensus_1 +TGACTAGGTTCCCGAG-1,True,TGACTAGGTTCCCGAG-1_contig_3,True,496,TRA,TRAV6-5,None,TRAJ23,TRAC,True,False,None,None,5144,2,clonotype103,None +TGACTAGGTTCCCGAG-1,True,TGACTAGGTTCCCGAG-1_contig_4,True,341,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,36830,8,clonotype103,None +TGAGAGGCAGCTGTGC-1,True,TGAGAGGCAGCTGTGC-1_contig_1,True,628,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASSIGGNYAEQFF,TGTGCCAGCAGTATTGGGGGGAACTATGCTGAGCAGTTCTTC,75546,7,clonotype104,clonotype104_consensus_1 +TGATTTCTCATCGCTC-1,True,TGATTTCTCATCGCTC-1_contig_1,True,697,TRA,TRAV9-4,None,TRAJ22,TRAC,True,True,CAVTSSGSWQLIF,TGTGCTGTGACATCTTCTGGCAGCTGGCAACTCATCTTT,59824,9,clonotype3,clonotype3_consensus_1 +TGATTTCTCATCGCTC-1,True,TGATTTCTCATCGCTC-1_contig_2,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGGAACACAGAAGTCTTCTTT,16172,2,clonotype3,clonotype3_consensus_2 +TGATTTCTCATCGCTC-1,True,TGATTTCTCATCGCTC-1_contig_3,True,566,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,1008,1,clonotype3,None +TGCTACCCAGGATTGG-1,True,TGCTACCCAGGATTGG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,49016,8,clonotype4,clonotype4_consensus_2 +TGCTACCCAGGATTGG-1,True,TGCTACCCAGGATTGG-1_contig_2,True,728,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,19014,5,clonotype4,clonotype4_consensus_1 +TGCTACCCAGGATTGG-1,True,TGCTACCCAGGATTGG-1_contig_3,True,498,TRB,TRBV2,None,TRBJ1-1,TRBC1,True,False,None,None,9264,3,clonotype4,None +TGGACGCAGCGATTCT-1,True,TGGACGCAGCGATTCT-1_contig_1,True,518,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASRLGFEQYF,TGTGCCAGCCGACTGGGGTTTGAACAGTACTTC,46518,23,clonotype12,clonotype12_consensus_2 +TGGACGCAGCGATTCT-1,True,TGGACGCAGCGATTCT-1_contig_2,True,591,TRA,TRAV12-3,None,TRAJ49,TRAC,True,True,CALSDPVTGYQNFYF,TGTGCTTTGAGTGACCCTGTCACGGGTTACCAGAACTTCTATTTT,21126,10,clonotype12,clonotype12_consensus_1 +TGGACGCAGCGATTCT-1,True,TGGACGCAGCGATTCT-1_contig_3,True,588,TRA,TRAV12D-1,None,TRAJ57,TRAC,True,False,CALSD,TGTGCTTTGAGTGAT,4362,2,clonotype12,None +TGGACGCAGCGATTCT-1,True,TGGACGCAGCGATTCT-1_contig_4,True,401,TRA,None,None,TRAJ39,TRAC,False,False,None,None,4402,1,clonotype12,None +TGGCGCAAGGACATTA-1,True,TGGCGCAAGGACATTA-1_contig_1,True,518,TRB,TRBV13-1,None,TRBJ1-2,TRBC1,True,True,CASSVTGANSDYTF,TGTGCCAGCAGTGTGACAGGGGCAAACTCCGACTACACCTTC,7886,1,clonotype105,clonotype105_consensus_2 +TGGCGCAAGGACATTA-1,True,TGGCGCAAGGACATTA-1_contig_2,True,537,TRB,TRBV20,None,TRBJ1-1,TRBC1,True,True,CGARGEGTNTEVFF,TGTGGTGCTAGGGGGGAAGGGACAAACACAGAAGTCTTCTTT,11320,2,clonotype105,clonotype105_consensus_1 +TGGCGCAAGGACATTA-1,True,TGGCGCAAGGACATTA-1_contig_3,True,336,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,45198,3,clonotype105,None +TGGCGCAAGGACATTA-1,True,TGGCGCAAGGACATTA-1_contig_4,True,543,TRA,TRAV7D-3,None,TRAJ35,TRAC,False,False,CAVTGFASALTF,TGTGCAGTGACAGGCTTTGCAAGTGCGCTGACATTT,10160,1,clonotype105,None +TGGTTAGCATGGTAGG-1,True,TGGTTAGCATGGTAGG-1_contig_1,True,528,TRB,TRBV17,None,TRBJ1-3,TRBC1,True,True,CASSSWQNSGNTLYF,TGTGCTAGCAGTAGCTGGCAGAATTCTGGAAATACGCTCTATTTT,65000,26,clonotype106,clonotype106_consensus_1 +TGGTTAGCATGGTAGG-1,True,TGGTTAGCATGGTAGG-1_contig_2,True,594,TRA,TRAV7-4,None,TRAJ45,TRAC,True,True,CAASDTGGADRLTF,TGTGCAGCTAGTGATACAGGAGGTGCAGATAGACTCACCTTT,4518,2,clonotype106,clonotype106_consensus_2 +TGGTTAGCATGGTAGG-1,True,TGGTTAGCATGGTAGG-1_contig_3,True,748,Multi,TRDV5,None,TRAJ33,TRAC,True,False,CASGRDSNYQLIW,TGTGCCTCGGGGAGGGATAGCAACTATCAGTTGATCTGG,2930,3,clonotype106,None +TGTGTTTTCGTAGGAG-1,True,TGTGTTTTCGTAGGAG-1_contig_1,True,639,TRA,TRAV7D-2,None,TRAJ32,TRAC,True,True,CAASMGGGSGNKLIF,TGTGCAGCAAGCATGGGGGGGGGCAGTGGCAACAAGCTCATCTTT,42862,4,clonotype107,clonotype107_consensus_2 +TGTGTTTTCGTAGGAG-1,True,TGTGTTTTCGTAGGAG-1_contig_2,True,522,TRB,TRBV31,None,TRBJ2-3,TRBC2,True,True,CAWTGGPAETLYF,TGTGCCTGGACTGGGGGTCCTGCAGAAACGCTGTATTTT,33678,4,clonotype107,clonotype107_consensus_1 +TGTGTTTTCTGTTGAG-1,True,TGTGTTTTCTGTTGAG-1_contig_1,True,516,TRB,TRBV17,None,TRBJ1-6,TRBC1,True,True,CGVQDNSPLYF,TGTGGGGTACAGGATAATTCGCCCCTCTACTTT,66006,3,clonotype108,clonotype108_consensus_1 +TGTGTTTTCTTCCTTC-1,True,TGTGTTTTCTTCCTTC-1_contig_1,True,518,TRB,TRBV13-1,None,TRBJ1-3,TRBC1,True,True,CASSDGGVGNTLYF,TGTGCCAGCAGTGATGGAGGGGTTGGAAATACGCTCTATTTT,30748,2,clonotype109,clonotype109_consensus_1 +TGTGTTTTCTTCCTTC-1,True,TGTGTTTTCTTCCTTC-1_contig_2,True,358,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,21780,1,clonotype109,None +TGTGTTTTCTTCCTTC-1,True,TGTGTTTTCTTCCTTC-1_contig_3,True,330,TRB,None,None,TRBJ1-4,TRBC1,False,False,None,None,25022,5,clonotype109,None +TGTTCCGCAGCGTTCG-1,True,TGTTCCGCAGCGTTCG-1_contig_1,True,521,TRB,TRBV13-1,None,TRBJ2-5,TRBC2,True,True,CASSDTTGGQDTQYF,TGTGCCAGCAGTGATACTACTGGGGGCCAAGACACCCAGTACTTT,78230,8,clonotype21,clonotype21_consensus_1 +TTAGGCAGTATTAGCC-1,True,TTAGGCAGTATTAGCC-1_contig_1,True,516,TRB,TRBV17,None,TRBJ1-6,TRBC1,True,True,CGVQDNSPLYF,TGTGGGGTACAGGATAATTCGCCCCTCTACTTT,60222,60,clonotype8,clonotype8_consensus_3 +TTAGGCAGTATTAGCC-1,True,TTAGGCAGTATTAGCC-1_contig_2,True,558,TRA,TRAV16N,None,TRAJ56,TRAC,True,True,CAMREGPGGNNKLTF,TGTGCTATGAGAGAGGGACCTGGAGGCAATAATAAGCTGACTTTT,3228,3,clonotype8,clonotype8_consensus_2 +TTAGGCAGTATTAGCC-1,True,TTAGGCAGTATTAGCC-1_contig_3,True,555,TRB,TRBV13-3,None,TRBJ1-3,TRBC1,True,True,CASSGDRGGNTLYF,TGTGCCAGCAGTGGGGACAGGGGTGGAAATACGCTCTATTTT,10918,10,clonotype8,clonotype8_consensus_1 +TTATGCTGTAGGCATG-1,True,TTATGCTGTAGGCATG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGGAACACAGAAGTCTTCTTT,41148,4,clonotype3,clonotype3_consensus_2 +TTATGCTGTAGGCATG-1,True,TTATGCTGTAGGCATG-1_contig_2,True,665,TRA,TRAV9-4,None,TRAJ22,TRAC,True,True,CAVTSSGSWQLIF,TGTGCTGTGACATCTTCTGGCAGCTGGCAACTCATCTTT,35314,8,clonotype3,clonotype3_consensus_1 +TTCGAAGTCTCTAAGG-1,True,TTCGAAGTCTCTAAGG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCAGGGACAGGGAACACAGAAGTCTTCTTT,48614,15,clonotype5,clonotype5_consensus_3 +TTCGAAGTCTCTAAGG-1,True,TTCGAAGTCTCTAAGG-1_contig_2,True,726,TRA,TRAV9-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTGACTAACAGTGCAGGGAACAAGCTAACTTTT,5956,3,clonotype5,clonotype5_consensus_2 +TTCGAAGTCTCTAAGG-1,True,TTCGAAGTCTCTAAGG-1_contig_3,True,726,TRA,TRAV9-4,None,TRAJ7,TRAC,True,True,CAVRDYSNNRLTL,TGTGCTGTGAGGGACTACAGCAACAACAGACTTACTTTG,5176,2,clonotype5,clonotype5_consensus_1 +TTCGAAGTCTCTAAGG-1,True,TTCGAAGTCTCTAAGG-1_contig_4,True,365,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,17558,3,clonotype5,None +TTTATGCAGCGTGAGT-1,True,TTTATGCAGCGTGAGT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCCGGACAGGGGAACACAGAAGTCTTCTTT,64736,9,clonotype110,clonotype110_consensus_1 +TTTATGCAGCGTGAGT-1,True,TTTATGCAGCGTGAGT-1_contig_2,True,429,TRA,TRAV9-4,None,TRAJ17,TRAC,True,False,CALTNSAGNKLTF,TGTGCTCTTACTAACAGTGCAGGGAACAAGCTAACTTTT,13444,1,clonotype110,None diff --git a/tests/testthat/fixtures/Chariou/h5files/SCAF1717_5_1_filtered_contig_annotations.csv b/tests/testthat/fixtures/Chariou/h5files/SCAF1717_5_1_filtered_contig_annotations.csv new file mode 100644 index 0000000..1a08201 --- /dev/null +++ b/tests/testthat/fixtures/Chariou/h5files/SCAF1717_5_1_filtered_contig_annotations.csv @@ -0,0 +1,186 @@ +barcode,is_cell,contig_id,high_confidence,length,chain,v_gene,d_gene,j_gene,c_gene,full_length,productive,cdr3,cdr3_nt,reads,umis,raw_clonotype_id,raw_consensus_id +AAAGCAAAGCTGCCCA-1,True,AAAGCAAAGCTGCCCA-1_contig_1,True,568,TRB,TRBV1,None,TRBJ1-5,TRBC1,True,True,CTCSGRDNNQAPLF,TGCACCTGCAGTGGCCGGGACAACAACCAGGCTCCGCTTTTT,69996,9,clonotype2,clonotype2_consensus_1 +AAAGCAAAGCTGCCCA-1,True,AAAGCAAAGCTGCCCA-1_contig_2,True,543,TRA,TRAV7D-2,None,TRAJ49,TRAC,True,True,CADTGYQNFYF,TGTGCAGACACGGGTTACCAGAACTTCTATTTT,9170,2,clonotype2,clonotype2_consensus_2 +AAAGCAACATATGAGA-1,True,AAAGCAACATATGAGA-1_contig_1,True,562,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSADRYEQYF,TGCACCTGCAGTGCAGACAGGTATGAACAGTACTTC,43352,3,clonotype3,clonotype3_consensus_1 +AAAGCAACATATGAGA-1,True,AAAGCAACATATGAGA-1_contig_2,True,391,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,32230,3,clonotype3,None +AAAGTAGGTATTCGTG-1,True,AAAGTAGGTATTCGTG-1_contig_1,True,714,TRB,TRBV2,None,TRBJ1-5,TRBC1,True,True,CASSQERGRHQAPLF,TGTGCCAGCAGCCAAGAGAGGGGAAGGCACCAGGCTCCGCTTTTT,39804,3,clonotype4,clonotype4_consensus_1 +AAAGTAGGTATTCGTG-1,True,AAAGTAGGTATTCGTG-1_contig_2,True,322,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,20470,3,clonotype4,None +AACTGGTCAAGCGTAG-1,True,AACTGGTCAAGCGTAG-1_contig_1,True,523,TRA,TRAV7D-2,None,TRAJ21,TRAC,True,True,CAASRGYNVLYF,TGTGCAGCAAGCAGAGGATACAACGTGCTTTACTTC,168,2,clonotype5,clonotype5_consensus_1 +AACTGGTCAAGCGTAG-1,True,AACTGGTCAAGCGTAG-1_contig_2,True,558,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGDEWVQDTQYF,TGTGCCAGCGGTGATGAGTGGGTCCAAGACACCCAGTACTTT,674,6,clonotype5,clonotype5_consensus_2 +ACACCGGTCAGCGACC-1,True,ACACCGGTCAGCGACC-1_contig_1,True,528,TRA,TRAV6N-7,None,TRAJ39,TRAC,True,True,CALGDNAGAKLTF,TGTGCTCTGGGTGATAATGCAGGTGCCAAGCTCACATTC,61284,5,clonotype6,clonotype6_consensus_1 +ACACTGAAGGGTCTCC-1,True,ACACTGAAGGGTCTCC-1_contig_1,True,564,TRB,TRBV20,TRBD1,TRBJ1-4,TRBC1,True,True,CGAGTGGVNERLFF,TGTGGTGCCGGGACAGGGGGCGTCAACGAAAGATTATTTTTC,31858,2,clonotype7,clonotype7_consensus_2 +ACACTGAAGGGTCTCC-1,True,ACACTGAAGGGTCTCC-1_contig_2,True,588,TRA,TRAV7-4,None,TRAJ49,TRAC,True,True,CAENTGYQNFYF,TGTGCAGAGAACACGGGTTACCAGAACTTCTATTTT,21568,2,clonotype7,clonotype7_consensus_1 +ACACTGAAGGGTCTCC-1,True,ACACTGAAGGGTCTCC-1_contig_3,True,362,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,23310,3,clonotype7,None +ACACTGAAGTGTTGAA-1,True,ACACTGAAGTGTTGAA-1_contig_1,True,518,TRA,TRAV6-4,None,TRAJ17,TRAC,True,True,CAQNSAGNKLTF,TGTGCTCAGAACAGTGCAGGGAACAAGCTAACTTTT,16502,5,clonotype8,clonotype8_consensus_2 +ACACTGAAGTGTTGAA-1,True,ACACTGAAGTGTTGAA-1_contig_2,True,568,TRB,TRBV1,None,TRBJ2-2,TRBC2,True,True,CTCSAQGDTGQLYF,TGCACCTGCAGTGCACAGGGGGACACCGGGCAGCTCTACTTT,54500,12,clonotype8,clonotype8_consensus_1 +ACACTGAAGTGTTGAA-1,True,ACACTGAAGTGTTGAA-1_contig_3,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,6724,1,clonotype8,None +ACATCAGAGAGGGATA-1,True,ACATCAGAGAGGGATA-1_contig_1,True,571,TRB,TRBV1,None,TRBJ2-5,TRBC2,True,True,CTCSARDRVKDTQYF,TGCACCTGCAGTGCCCGGGACAGGGTTAAAGACACCCAGTACTTT,802,8,clonotype9,clonotype9_consensus_1 +ACATCAGAGAGGGATA-1,True,ACATCAGAGAGGGATA-1_contig_2,True,419,TRA,None,None,TRAJ32,TRAC,False,False,None,None,84,1,clonotype9,None +ACATCAGAGAGGGATA-1,True,ACATCAGAGAGGGATA-1_contig_3,True,570,Multi,TRDV1,None,TRAJ50,TRAC,True,False,CGGKAFASSSFSKLVF,TGTGGAGGGAAAGCTTTCGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,326,5,clonotype9,None +ACCTTTAAGCCAGTAG-1,True,ACCTTTAAGCCAGTAG-1_contig_1,True,570,TRB,TRBV13-3,None,TRBJ2-2,TRBC2,True,True,CASSDAGTGVLNTGQLYF,TGTGCCAGCAGTGATGCGGGGACTGGGGTCCTAAACACCGGGCAGCTCTACTTT,30230,4,clonotype10,clonotype10_consensus_2 +ACCTTTAAGCCAGTAG-1,True,ACCTTTAAGCCAGTAG-1_contig_2,True,580,TRA,TRAV12D-2,None,TRAJ43,TRAC,True,True,CALSNNNNAPRF,TGTGCTCTGAGCAATAACAACAATGCCCCACGATTT,45238,6,clonotype10,clonotype10_consensus_1 +ACCTTTAAGCCAGTAG-1,True,ACCTTTAAGCCAGTAG-1_contig_3,True,518,TRB,TRBV31,None,TRBJ2-4,None,True,False,CAWPGLGGRTLYF,TGTGCCTGGCCGGGACTGGGGGGCAGAACGCTGTATTTT,182,2,clonotype10,None +ACGGGTCCATGTAGTC-1,True,ACGGGTCCATGTAGTC-1_contig_1,True,531,TRA,TRAV6N-7,None,TRAJ32,TRAC,True,True,CALRGRGSGNKLIF,TGTGCTCTGAGAGGCCGGGGCAGTGGCAACAAGCTCATCTTT,41034,3,clonotype11,clonotype11_consensus_2 +ACGGGTCCATGTAGTC-1,True,ACGGGTCCATGTAGTC-1_contig_2,True,516,TRB,TRBV5,None,TRBJ2-2,TRBC2,True,True,CASSHPGLGDTGQLYF,TGTGCCAGCAGCCACCCGGGACTGGGTGACACCGGGCAGCTCTACTTT,21822,2,clonotype11,clonotype11_consensus_1 +ACGGGTCCATGTAGTC-1,True,ACGGGTCCATGTAGTC-1_contig_3,True,306,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,15706,1,clonotype11,None +ACTGAACGTAAGAGAG-1,True,ACTGAACGTAAGAGAG-1_contig_1,True,516,TRB,TRBV5,None,TRBJ2-2,TRBC2,True,True,CASSQDLGQYTGQLYF,TGTGCCAGCAGCCAAGATCTGGGACAGTACACCGGGCAGCTCTACTTT,29054,3,clonotype12,clonotype12_consensus_1 +ACTGAACGTAAGAGAG-1,True,ACTGAACGTAAGAGAG-1_contig_2,True,348,TRB,TRBV31,None,TRBJ1-3,TRBC1,True,False,CLESSGNNSGNTLYF,TGCCTGGAGTCATCAGGGAACAATTCTGGAAATACGCTCTATTTT,9634,5,clonotype12,None +AGAGTGGTCCGATATG-1,True,AGAGTGGTCCGATATG-1_contig_1,True,512,TRB,TRBV13-1,None,TRBJ2-7,TRBC2,True,True,CASSDVGGGQYF,TGTGCCAGCAGTGATGTTGGGGGAGGGCAGTACTTC,49024,3,clonotype13,clonotype13_consensus_1 +AGCATACGTACTTCTT-1,True,AGCATACGTACTTCTT-1_contig_1,True,568,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,True,CTCSAGGEGTEVFF,TGCACCTGCAGTGCAGGGGGCGAAGGCACAGAAGTCTTCTTT,64036,16,clonotype14,clonotype14_consensus_1 +AGCATACGTACTTCTT-1,True,AGCATACGTACTTCTT-1_contig_2,True,528,TRA,TRAV6-3,None,TRAJ31,TRAC,True,True,CAMRDNNNRIFF,TGTGCTATGAGAGATAACAATAACAGAATCTTCTTT,11970,3,clonotype14,clonotype14_consensus_2 +AGGGTGAAGCCACCTG-1,True,AGGGTGAAGCCACCTG-1_contig_1,True,540,TRA,TRAV15-1-DV6-1,None,TRAJ12,TRAC,True,True,CALWELAPGGYKVVF,TGTGCTCTCTGGGAGCTGGCTCCTGGAGGCTATAAAGTGGTCTTT,41732,5,clonotype15,clonotype15_consensus_1 +AGGTCATCATGCTAGT-1,True,AGGTCATCATGCTAGT-1_contig_1,True,526,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASSLWGASSYEQYF,TGTGCCAGCAGCCTCTGGGGGGCAAGCTCCTATGAACAGTACTTC,50532,5,clonotype16,clonotype16_consensus_2 +AGGTCATCATGCTAGT-1,True,AGGTCATCATGCTAGT-1_contig_2,True,543,TRA,TRAV6N-7,None,TRAJ27,TRAC,True,True,CALSLNTNTGKLTF,TGTGCTCTGAGTCTTAACACCAATACAGGCAAATTAACCTTT,26362,2,clonotype16,clonotype16_consensus_1 +AGTCTTTGTCCAGTGC-1,True,AGTCTTTGTCCAGTGC-1_contig_1,True,525,TRA,TRAV6-3,None,TRAJ11,TRAC,True,True,CPDSGYNKLTF,TGCCCTGACTCGGGATACAACAAACTCACTTTT,66516,4,clonotype17,clonotype17_consensus_1 +AGTCTTTGTCCAGTGC-1,True,AGTCTTTGTCCAGTGC-1_contig_2,True,353,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,66,1,clonotype17,None +AGTGGGACAATGGATA-1,True,AGTGGGACAATGGATA-1_contig_1,True,518,TRA,TRAV7D-5,None,TRAJ48,TRAC,True,True,CAMKDHGNEKITF,TGTGCAATGAAGGACCATGGAAATGAGAAAATAACTTTT,41990,12,clonotype18,clonotype18_consensus_1 +AGTGGGACAATGGATA-1,True,AGTGGGACAATGGATA-1_contig_2,True,510,TRB,TRBV29,None,TRBJ2-7,TRBC2,True,True,CASSFRIEQYF,TGTGCTAGCAGTTTTCGGATTGAACAGTACTTC,33948,7,clonotype18,clonotype18_consensus_2 +ATCTACTCACATTTCT-1,True,ATCTACTCACATTTCT-1_contig_1,True,524,TRB,TRBV13-1,None,TRBJ2-4,TRBC2,True,True,CASSDAGRGSQNTLYF,TGTGCCAGCAGTGATGCGGGGAGAGGGAGTCAAAACACCTTGTACTTT,43816,6,clonotype19,clonotype19_consensus_1 +ATCTACTCACATTTCT-1,True,ATCTACTCACATTTCT-1_contig_2,True,579,TRA,TRAV12D-2,None,TRAJ18,TRAC,True,True,CALSDRGSALGRLHF,TGTGCTTTGAGTGACAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,22094,22,clonotype19,clonotype19_consensus_2 +ATTGGTGAGTCCGGTC-1,True,ATTGGTGAGTCCGGTC-1_contig_1,True,524,TRB,TRBV13-1,None,TRBJ2-2,TRBC2,True,True,CASSDARDRNTGQLYF,TGTGCCAGCAGTGATGCCCGGGACAGAAACACCGGGCAGCTCTACTTT,17392,2,clonotype1,clonotype1_consensus_1 +ATTGGTGAGTCCGGTC-1,True,ATTGGTGAGTCCGGTC-1_contig_2,True,406,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,28482,3,clonotype1,None +ATTGGTGAGTCCGGTC-1,True,ATTGGTGAGTCCGGTC-1_contig_3,True,333,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,13790,1,clonotype1,None +ATTGGTGAGTCCGGTC-1,True,ATTGGTGAGTCCGGTC-1_contig_4,True,577,TRA,TRAV16N,None,TRAJ13,TRAC,True,False,None,None,18974,3,clonotype1,None +ATTGGTGGTCCGTGAC-1,True,ATTGGTGGTCCGTGAC-1_contig_1,True,523,TRB,TRBV13-3,None,TRBJ2-1,TRBC2,True,True,CASSIRENYAEQFF,TGTGCCAGCAGCATCCGGGAGAACTATGCTGAGCAGTTCTTC,77200,8,clonotype20,clonotype20_consensus_1 +CAAGAAACACGGATAG-1,True,CAAGAAACACGGATAG-1_contig_1,True,516,TRB,TRBV31,None,TRBJ2-5,TRBC2,True,True,CAWTLTGGQDTQYF,TGTGCCTGGACCCTGACAGGGGGCCAAGACACCCAGTACTTT,61808,5,clonotype21,clonotype21_consensus_2 +CAAGAAACACGGATAG-1,True,CAAGAAACACGGATAG-1_contig_2,True,561,TRA,TRAV15D-1-DV6D-1,None,TRAJ16,TRAC,True,True,CALWELECTSSGQKLVF,TGTGCTCTCTGGGAGCTAGAGTGCACTTCAAGTGGCCAGAAGCTGGTTTTT,16838,2,clonotype21,clonotype21_consensus_1 +CACACTCAGATGGGTC-1,True,CACACTCAGATGGGTC-1_contig_1,True,671,TRB,TRBV3,None,TRBJ1-4,TRBC1,True,True,CASSFRANERLFF,TGTGCCAGCAGCTTCAGGGCCAACGAAAGATTATTTTTC,67836,4,clonotype22,clonotype22_consensus_1 +CACACTCAGATGGGTC-1,True,CACACTCAGATGGGTC-1_contig_2,True,402,TRA,TRAV11,None,TRAJ18,TRAC,True,False,CVVGDRGSALGRLHF,TGTGTGGTGGGAGATAGAGGTTCAGCCTTAGGGAGGCTGCATTTT,6492,3,clonotype22,None +CACAGGCCATCGTCGG-1,True,CACAGGCCATCGTCGG-1_contig_1,True,507,TRA,TRAV21-DV12,None,TRAJ39,TRAC,True,True,CILRVFNNAGAKLTF,TGTATCCTGAGAGTCTTTAATAATGCAGGTGCCAAGCTCACATTC,28504,12,clonotype23,clonotype23_consensus_2 +CACAGGCCATCGTCGG-1,True,CACAGGCCATCGTCGG-1_contig_2,True,568,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSADRWGLEQYF,TGCACCTGCAGTGCAGATCGTTGGGGGCTTGAACAGTACTTC,49776,27,clonotype23,clonotype23_consensus_1 +CAGAATCAGACAGGCT-1,True,CAGAATCAGACAGGCT-1_contig_1,True,566,TRA,TRAV16N,None,TRAJ39,TRAC,True,True,CAMREGGNAGAKLTF,TGTGCTATGAGAGAGGGCGGTAATGCAGGTGCCAAGCTCACATTC,9304,2,clonotype24,clonotype24_consensus_2 +CAGAATCAGACAGGCT-1,True,CAGAATCAGACAGGCT-1_contig_2,True,594,TRB,TRBV5,None,TRBJ1-4,TRBC1,True,True,CASSQDWASNERLFF,TGTGCCAGCAGCCAAGATTGGGCTTCCAACGAAAGATTATTTTTC,65952,9,clonotype24,clonotype24_consensus_1 +CAGCAGCGTGGTACAG-1,True,CAGCAGCGTGGTACAG-1_contig_1,True,562,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSADSYEQYF,TGCACCTGCAGTGCAGACTCCTATGAACAGTACTTC,63176,5,clonotype25,clonotype25_consensus_1 +CAGTCCTAGCCACGCT-1,True,CAGTCCTAGCCACGCT-1_contig_1,True,591,TRA,TRAV7-4,None,TRAJ27,TRAC,True,True,CAASGPNTGKLTF,TGTGCAGCTAGTGGCCCCAATACAGGCAAATTAACCTTT,38924,4,clonotype26,clonotype26_consensus_1 +CAGTCCTAGCCACGCT-1,True,CAGTCCTAGCCACGCT-1_contig_2,True,710,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASSIAGANYAEQFF,TGTGCCAGCAGTATAGCCGGGGCGAACTATGCTGAGCAGTTCTTC,37564,5,clonotype26,clonotype26_consensus_2 +CAGTCCTGTTCACCTC-1,True,CAGTCCTGTTCACCTC-1_contig_1,True,591,TRA,TRAV7D-4,None,TRAJ45,TRAC,True,True,CAAITGGADRLTF,TGTGCAGCTATTACAGGAGGTGCAGATAGACTCACCTTT,28056,2,clonotype27,clonotype27_consensus_1 +CAGTCCTGTTCACCTC-1,True,CAGTCCTGTTCACCTC-1_contig_2,True,522,TRB,TRBV5,None,TRBJ2-3,TRBC2,True,True,CASSRDWNSAETLYF,TGTGCCAGCAGCCGAGACTGGAATAGTGCAGAAACGCTGTATTTT,22652,3,clonotype27,clonotype27_consensus_2 +CAGTCCTGTTCACCTC-1,True,CAGTCCTGTTCACCTC-1_contig_3,True,511,TRA,TRAV6-5,None,TRAJ42,TRAC,True,False,CTTVLWVIGGSNAKLTF,TGTACTACTGTGCTCTGGGTGATAGGAGGAAGCAATGCAAAGCTAACCTTC,24982,2,clonotype27,None +CCCAGTTTCTGGCGTG-1,True,CCCAGTTTCTGGCGTG-1_contig_1,True,524,TRB,TRBV13-1,None,TRBJ2-2,TRBC2,True,True,CASSDARDRNTGQLYF,TGTGCCAGCAGTGATGCCCGGGACAGAAACACCGGGCAGCTCTACTTT,21512,4,clonotype1,clonotype1_consensus_1 +CCCAGTTTCTGGCGTG-1,True,CCCAGTTTCTGGCGTG-1_contig_2,True,422,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,44672,8,clonotype1,None +CCCAGTTTCTGGCGTG-1,True,CCCAGTTTCTGGCGTG-1_contig_3,True,357,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,9012,2,clonotype1,None +CCGGTAGCATTCTCAT-1,True,CCGGTAGCATTCTCAT-1_contig_1,True,715,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASSRRTGDKQFF,TGTGCCAGCAGTAGGAGGACAGGGGATAAGCAGTTCTTC,65424,3,clonotype28,clonotype28_consensus_2 +CCGGTAGCATTCTCAT-1,True,CCGGTAGCATTCTCAT-1_contig_2,True,548,TRA,TRAV9-1,None,TRAJ50,TRAC,True,True,CAASKGSSSFSKLVF,TGTGCTGCGAGCAAGGGATCCTCCTCCTTCAGCAAGCTGGTGTTT,5644,1,clonotype28,clonotype28_consensus_1 +CCGGTAGCATTCTCAT-1,True,CCGGTAGCATTCTCAT-1_contig_3,True,558,TRA,TRAV12-1,None,TRAJ45,TRAC,True,False,CPVLLCSYTGGADRLTF,TGCCCTGTACTACTGTGCTCTTATACAGGAGGTGCAGATAGACTCACCTTT,5816,2,clonotype28,None +CCGTGGATCGGTTAAC-1,True,CCGTGGATCGGTTAAC-1_contig_1,True,701,TRB,TRBV19,None,TRBJ2-3,TRBC2,True,True,CASRTQGIGAETLYF,TGTGCCAGCAGGACTCAGGGGATCGGTGCAGAAACGCTGTATTTT,43996,4,clonotype29,clonotype29_consensus_1 +CCGTGGATCGGTTAAC-1,True,CCGTGGATCGGTTAAC-1_contig_2,True,533,TRA,TRAV6N-7,None,TRAJ53,TRAC,True,True,CALGGGGSNYKLTF,TGTGCTCTGGGTGGAGGAGGCAGCAATTACAAACTGACATTT,14968,1,clonotype29,clonotype29_consensus_2 +CCGTGGATCGGTTAAC-1,True,CCGTGGATCGGTTAAC-1_contig_3,True,432,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,20256,1,clonotype29,None +CGATCGGGTCCAGTTA-1,True,CGATCGGGTCCAGTTA-1_contig_1,True,513,TRA,TRAV7-3,None,TRAJ2,TRAC,True,True,CAVSTGGLSGKLTF,TGTGCAGTGAGTACTGGAGGACTAAGTGGTAAATTAACATTC,7642,3,clonotype30,clonotype30_consensus_2 +CGATCGGGTCCAGTTA-1,True,CGATCGGGTCCAGTTA-1_contig_2,True,698,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASSIWGSNTEVFF,TGTGCCAGCAGTATTTGGGGGTCAAACACAGAAGTCTTCTTT,41092,8,clonotype30,clonotype30_consensus_1 +CGATCGGGTCCAGTTA-1,True,CGATCGGGTCCAGTTA-1_contig_3,True,717,TRB,None,None,TRBJ2-4,TRBC2,False,False,None,None,29892,7,clonotype30,None +CGATTGAGTGTTGAGG-1,True,CGATTGAGTGTTGAGG-1_contig_1,True,618,TRB,TRBV20,None,TRBJ1-1,TRBC1,True,True,CGARAGANTEVFF,TGTGGTGCTAGGGCCGGTGCAAACACAGAAGTCTTCTTT,63236,3,clonotype31,clonotype31_consensus_1 +CGCGTTTCATTACCTT-1,True,CGCGTTTCATTACCTT-1_contig_1,True,573,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-5,TRBC1,True,True,CASGDQGRNQAPLF,TGTGCCAGCGGTGATCAGGGGAGGAACCAGGCTCCGCTTTTT,57028,11,clonotype32,clonotype32_consensus_1 +CGCGTTTCATTACCTT-1,True,CGCGTTTCATTACCTT-1_contig_2,True,588,TRA,TRAV12-3,None,TRAJ39,TRAC,True,True,CALRNNNAGAKLTF,TGTGCTTTGAGGAATAATAATGCAGGTGCCAAGCTCACATTC,10140,2,clonotype32,clonotype32_consensus_2 +CGTCAGGAGCGAAGGG-1,True,CGTCAGGAGCGAAGGG-1_contig_1,True,556,TRB,TRBV20,None,TRBJ1-1,TRBC1,True,True,CGARGGAPEVFF,TGTGGTGCTAGGGGGGGGGCCCCAGAAGTCTTCTTT,27938,3,clonotype33,clonotype33_consensus_2 +CGTCAGGAGCGAAGGG-1,True,CGTCAGGAGCGAAGGG-1_contig_2,True,509,TRB,TRBV26,None,TRBJ1-1,TRBC1,True,True,CARGINTEVFF,TGTGCCAGAGGGATTAACACAGAAGTCTTCTTT,48616,4,clonotype33,clonotype33_consensus_1 +CGTTCTGTCTCAAACG-1,True,CGTTCTGTCTCAAACG-1_contig_1,True,555,TRA,TRAV7D-5,None,TRAJ48,TRAC,True,True,CAMTDGNEKITF,TGTGCAATGACGGATGGAAATGAGAAAATAACTTTT,34094,8,clonotype34,clonotype34_consensus_2 +CGTTCTGTCTCAAACG-1,True,CGTTCTGTCTCAAACG-1_contig_2,True,520,TRB,TRBV31,None,TRBJ1-1,TRBC1,True,True,CAWSLDNANTEVFF,TGTGCCTGGAGTCTCGACAATGCAAACACAGAAGTCTTCTTT,23288,3,clonotype34,clonotype34_consensus_1 +CGTTCTGTCTCAAACG-1,True,CGTTCTGTCTCAAACG-1_contig_3,True,551,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,16480,4,clonotype34,None +CTAAGACCATCCCATC-1,True,CTAAGACCATCCCATC-1_contig_1,True,558,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASSDNWGYEQYF,TGTGCCAGCAGTGATAACTGGGGTTATGAACAGTACTTC,27436,2,clonotype35,clonotype35_consensus_1 +CTAAGACCATCCCATC-1,True,CTAAGACCATCCCATC-1_contig_2,True,519,TRA,TRAV7D-5,None,TRAJ52,TRAC,True,True,CAITGANTGKLTF,TGTGCAATCACTGGAGCTAACACTGGAAAGCTCACGTTT,13208,1,clonotype35,clonotype35_consensus_2 +CTAAGACCATCCCATC-1,True,CTAAGACCATCCCATC-1_contig_3,True,711,TRB,None,None,TRBJ1-2,TRBC1,False,False,None,None,14742,1,clonotype35,None +CTAAGACCATCCCATC-1,True,CTAAGACCATCCCATC-1_contig_4,True,598,TRA,TRAV7-4,None,TRAJ49,TRAC,True,False,None,None,15182,3,clonotype35,None +CTCCTAGAGTTAGCGG-1,True,CTCCTAGAGTTAGCGG-1_contig_1,True,558,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSDRRGRGGERLFF,TGTGCCAGCAGTGATCGCAGGGGGCGCGGGGGCGAAAGATTATTTTTC,16314,3,clonotype36,clonotype36_consensus_1 +CTCCTAGAGTTAGCGG-1,True,CTCCTAGAGTTAGCGG-1_contig_2,True,414,TRB,None,None,TRBJ1-3,TRBC1,False,False,None,None,16062,2,clonotype36,None +CTCCTAGAGTTAGCGG-1,True,CTCCTAGAGTTAGCGG-1_contig_3,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,20872,3,clonotype36,None +CTCCTAGAGTTAGCGG-1,True,CTCCTAGAGTTAGCGG-1_contig_4,True,498,TRA,TRAV19,None,TRAJ56,TRAC,True,False,CAAGDLLE,TGCGCAGCAGGTGACCTACTGGAG,21474,3,clonotype36,None +CTCGAAAAGCCACTAT-1,True,CTCGAAAAGCCACTAT-1_contig_1,True,542,TRA,TRAV9-1,None,TRAJ27,TRAC,True,True,CAVRNTNTGKLTF,TGTGCTGTGAGGAACACCAATACAGGCAAATTAACCTTT,63534,9,clonotype37,clonotype37_consensus_1 +CTGATCCAGTCAAGCG-1,True,CTGATCCAGTCAAGCG-1_contig_1,True,541,TRB,TRBV10,None,TRBJ1-6,TRBC1,True,True,CASSRGGNSPLYF,TGTGCCAGCTCAAGGGGGGGGAATTCGCCCCTCTACTTT,18922,1,clonotype38,clonotype38_consensus_1 +CTGATCCAGTCAAGCG-1,True,CTGATCCAGTCAAGCG-1_contig_2,True,623,TRA,TRAV5D-4,None,TRAJ56,TRAC,True,True,CAASRTGGNNKLTF,TGTGCTGCAAGTAGGACTGGAGGCAATAATAAGCTGACTTTT,58300,4,clonotype38,clonotype38_consensus_2 +CTGGTCTAGTACGACG-1,True,CTGGTCTAGTACGACG-1_contig_1,True,530,TRA,TRAV6N-7,None,TRAJ50,TRAC,True,True,CALGEPSSFSKLVF,TGTGCTCTGGGTGAACCCTCCTCCTTCAGCAAGCTGGTGTTT,47632,5,clonotype39,clonotype39_consensus_2 +CTGGTCTAGTACGACG-1,True,CTGGTCTAGTACGACG-1_contig_2,True,547,TRB,TRBV10,None,TRBJ1-4,TRBC1,True,True,CASSTGQFSNERLFF,TGTGCCAGCAGCACGGGACAGTTTTCCAACGAAAGATTATTTTTC,29094,4,clonotype39,clonotype39_consensus_1 +CTTAACTAGTGTACCT-1,True,CTTAACTAGTGTACCT-1_contig_1,True,562,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGASQDTQYF,TGTGCCAGCGGTGCCTCTCAAGACACCCAGTACTTT,56152,8,clonotype40,clonotype40_consensus_1 +CTTAACTAGTGTACCT-1,True,CTTAACTAGTGTACCT-1_contig_2,True,562,TRA,TRAV4-4-DV10,None,TRAJ52,TRAC,True,True,CAAANTGANTGKLTF,TGTGCTGCTGCAAACACTGGAGCTAACACTGGAAAGCTCACGTTT,7032,1,clonotype40,clonotype40_consensus_2 +CTTAACTAGTGTACCT-1,True,CTTAACTAGTGTACCT-1_contig_3,True,690,TRA,TRAV13-4-DV7,None,TRAJ49,TRAC,True,False,None,None,11962,1,clonotype40,None +CTTTGCGCAACAACCT-1,True,CTTTGCGCAACAACCT-1_contig_1,True,524,TRA,TRAV6D-4,None,TRAJ22,TRAC,True,True,CALVESSGSWQLIF,TGTGCTCTGGTTGAGTCTTCTGGCAGCTGGCAACTCATCTTT,19270,3,clonotype41,clonotype41_consensus_2 +CTTTGCGCAACAACCT-1,True,CTTTGCGCAACAACCT-1_contig_2,True,657,TRB,TRBV2,None,TRBJ2-7,TRBC2,True,True,CASSQEGQGRNEQYF,TGTGCCAGCAGCCAAGAGGGACAGGGGAGGAATGAACAGTACTTC,23990,3,clonotype41,clonotype41_consensus_1 +CTTTGCGCAACAACCT-1,True,CTTTGCGCAACAACCT-1_contig_3,True,510,TRB,None,None,TRBJ1-6,TRBC1,False,False,None,None,33468,3,clonotype41,None +GAAATGAGTTTGACAC-1,True,GAAATGAGTTTGACAC-1_contig_1,True,660,TRA,TRAV5D-4,None,TRAJ45,TRAC,True,True,CAAINTGGADRLTF,TGTGCTGCGATCAATACAGGAGGTGCAGATAGACTCACCTTT,47380,5,clonotype42,clonotype42_consensus_2 +GAAATGAGTTTGACAC-1,True,GAAATGAGTTTGACAC-1_contig_2,True,519,TRB,TRBV5,None,TRBJ2-4,TRBC2,True,True,CASSHWASQNTLYF,TGTGCCAGCAGCCACTGGGCTAGTCAAAACACCTTGTACTTT,31490,2,clonotype42,clonotype42_consensus_1 +GACGCGTCAGACGCAA-1,True,GACGCGTCAGACGCAA-1_contig_1,True,530,TRA,TRAV16N,None,TRAJ27,TRAC,True,True,CAMREGNTNTGKLTF,TGTGCTATGAGAGAGGGCAACACCAATACAGGCAAATTAACCTTT,19732,1,clonotype43,clonotype43_consensus_1 +GACGCGTCAGACGCAA-1,True,GACGCGTCAGACGCAA-1_contig_2,True,640,TRB,TRBV1,None,TRBJ1-2,TRBC1,True,True,CTCSALASNSDYTF,TGCACCTGCAGTGCCCTGGCATCAAACTCCGACTACACCTTC,16296,2,clonotype43,clonotype43_consensus_2 +GACGCGTCAGACGCAA-1,True,GACGCGTCAGACGCAA-1_contig_3,True,559,TRA,TRAV11,None,TRAJ27,TRAC,True,True,CVVVLNTNTGKLTF,TGTGTGGTGGTCCTTAACACCAATACAGGCAAATTAACCTTT,20348,1,clonotype43,clonotype43_consensus_3 +GACGCGTCAGACGCAA-1,True,GACGCGTCAGACGCAA-1_contig_4,True,718,TRB,None,None,TRBJ2-5,TRBC2,False,False,None,None,22412,2,clonotype43,None +GATCGATTCTTGACGA-1,True,GATCGATTCTTGACGA-1_contig_1,True,518,TRA,TRAV6D-4,None,TRAJ31,TRAC,True,True,CALAPNNNRIFF,TGTGCTCTGGCCCCAAACAATAACAGAATCTTCTTT,25480,3,clonotype44,clonotype44_consensus_1 +GATCGATTCTTGACGA-1,True,GATCGATTCTTGACGA-1_contig_2,True,527,TRB,TRBV5,None,TRBJ1-4,TRBC1,True,True,CASSQDPGQTNERLFF,TGTGCCAGCAGCCAAGATCCGGGACAAACCAACGAAAGATTATTTTTC,12156,2,clonotype44,clonotype44_consensus_2 +GATCGATTCTTGACGA-1,True,GATCGATTCTTGACGA-1_contig_3,True,397,TRA,TRAV6D-7,None,TRAJ44,TRAC,True,False,CALSDLWQWWKTHF,TGTGCTCTGAGTGATCTCTGGCAGTGGTGGAAAACTCACTTT,15256,2,clonotype44,None +GATCGATTCTTGACGA-1,True,GATCGATTCTTGACGA-1_contig_4,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,13294,2,clonotype44,None +GATCGATTCTTGACGA-1,True,GATCGATTCTTGACGA-1_contig_5,True,359,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,12566,1,clonotype44,None +GATCGTAAGAAACCGC-1,True,GATCGTAAGAAACCGC-1_contig_1,True,562,TRA,TRAV7-4,None,TRAJ27,TRAC,True,True,CAASNTNTGKLTF,TGTGCAGCTAGTAACACCAATACAGGCAAATTAACCTTT,33696,6,clonotype45,clonotype45_consensus_1 +GATCGTAAGAAACCGC-1,True,GATCGTAAGAAACCGC-1_contig_2,True,525,TRB,TRBV5,None,TRBJ2-2,TRBC2,True,True,CASSQEGLGNTGQLYF,TGTGCCAGCAGCCAAGAGGGACTGGGAAACACCGGGCAGCTCTACTTT,29574,4,clonotype45,clonotype45_consensus_2 +GCATACACACCCTATC-1,True,GCATACACACCCTATC-1_contig_1,True,601,TRA,TRAV12D-2,None,TRAJ52,TRAC,True,True,CALRGSNTGANTGKLTF,TGTGCTCTGAGGGGTTCTAACACTGGAGCTAACACTGGAAAGCTCACGTTT,34778,5,clonotype46,clonotype46_consensus_2 +GCATACACACCCTATC-1,True,GCATACACACCCTATC-1_contig_2,True,603,TRA,TRAV5D-4,None,TRAJ52,TRAC,True,True,CAARGDTGANTGKLTF,TGTGCTGCAAGAGGGGACACTGGAGCTAACACTGGAAAGCTCACGTTT,24028,4,clonotype46,clonotype46_consensus_3 +GCATACACACCCTATC-1,True,GCATACACACCCTATC-1_contig_3,True,513,TRB,TRBV31,None,TRBJ2-3,TRBC2,True,True,CAWSPRWAGAETLYF,TGTGCCTGGAGTCCCAGGTGGGCCGGGGCAGAAACGCTGTATTTT,15500,2,clonotype46,clonotype46_consensus_1 +GCATACACACCCTATC-1,True,GCATACACACCCTATC-1_contig_4,True,446,TRA,None,None,TRAJ41,TRAC,False,False,None,None,2126,2,clonotype46,None +GCTGGGTGTTACGTCA-1,True,GCTGGGTGTTACGTCA-1_contig_1,True,534,TRB,TRBV17,None,TRBJ1-2,TRBC1,True,True,CASSRESPGTPNSDYTF,TGTGCTAGCAGTAGAGAGAGCCCCGGGACACCAAACTCCGACTACACCTTC,52408,4,clonotype47,clonotype47_consensus_1 +GCTGGGTGTTACGTCA-1,True,GCTGGGTGTTACGTCA-1_contig_2,True,489,TRA,TRAV7-4,None,TRAJ42,TRAC,True,False,CAASEHDSGGSNAKLTF,TGTGCAGCTAGTGAGCATGATTCTGGAGGAAGCAATGCAAAGCTAACCTTC,24862,1,clonotype47,None +GGCGTGTTCACATGCA-1,True,GGCGTGTTCACATGCA-1_contig_1,True,605,TRA,TRAV14D-2,None,TRAJ49,TRAC,True,True,CAANTGYQNFYF,TGTGCAGCAAACACGGGTTACCAGAACTTCTATTTT,14622,3,clonotype48,clonotype48_consensus_2 +GGCGTGTTCACATGCA-1,True,GGCGTGTTCACATGCA-1_contig_2,True,519,TRB,TRBV31,None,TRBJ2-4,TRBC2,True,True,CAWRSSQNTLYF,TGTGCCTGGAGAAGTAGTCAAAACACCTTGTACTTT,64470,11,clonotype48,clonotype48_consensus_1 +GTCATTTGTATGAAAC-1,True,GTCATTTGTATGAAAC-1_contig_1,True,568,TRB,TRBV1,None,TRBJ2-7,TRBC2,True,True,CTCSADRGLYEQYF,TGCACCTGCAGTGCAGACAGGGGGTTATATGAACAGTACTTC,55520,8,clonotype49,clonotype49_consensus_1 +GTCATTTGTATGAAAC-1,True,GTCATTTGTATGAAAC-1_contig_2,True,560,Multi,TRDV2-2,None,TRAJ57,TRAC,True,False,CALMERGWHISEGYELRQGGSAKLIF,TGTGCTCTCATGGAGCGCGGGTGGCACATATCGGAGGGATACGAGCTGCGGCAAGGAGGGTCTGCGAAGCTCATCTTT,19164,3,clonotype49,None +GTCCTCAGTTTACTCT-1,True,GTCCTCAGTTTACTCT-1_contig_1,True,586,TRA,TRAV4-4-DV10,None,TRAJ50,TRAC,True,True,CAAEAASSSFSKLVF,TGTGCTGCTGAGGCCGCATCCTCCTCCTTCAGCAAGCTGGTGTTT,826,13,clonotype50,clonotype50_consensus_2 +GTCCTCAGTTTACTCT-1,True,GTCCTCAGTTTACTCT-1_contig_2,True,519,TRB,TRBV5,TRBD1,TRBJ2-7,TRBC2,True,True,CASSHRDRGLEQYF,TGTGCCAGCAGCCACCGGGACAGGGGGCTTGAACAGTACTTC,228,3,clonotype50,clonotype50_consensus_1 +GTCCTCAGTTTACTCT-1,True,GTCCTCAGTTTACTCT-1_contig_3,True,423,TRB,None,None,TRBJ2-3,TRBC2,False,False,None,None,2030,14,clonotype50,None +GTCTTCGTCCAGATCA-1,True,GTCTTCGTCCAGATCA-1_contig_1,True,568,TRB,TRBV1,None,TRBJ2-1,TRBC2,True,True,CTCSAQVNYAEQFF,TGCACCTGCAGTGCTCAGGTCAACTATGCTGAGCAGTTCTTC,64024,23,clonotype51,clonotype51_consensus_2 +GTCTTCGTCCAGATCA-1,True,GTCTTCGTCCAGATCA-1_contig_2,True,512,TRA,TRAV6D-4,None,TRAJ34,TRAC,True,True,CALDTDKVVF,TGTGCTCTGGATACCGACAAAGTCGTCTTT,11410,4,clonotype51,clonotype51_consensus_1 +GTGCAGCCACAAGACG-1,True,GTGCAGCCACAAGACG-1_contig_1,True,518,TRA,TRAV7D-2,None,TRAJ2,TRAC,True,True,CAASTGGLSGKLTF,TGTGCAGCAAGCACGGGAGGACTAAGTGGTAAATTAACATTC,67990,12,clonotype52,clonotype52_consensus_2 +GTGCAGCCACAAGACG-1,True,GTGCAGCCACAAGACG-1_contig_2,True,572,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGDAGGGDTQYF,TGTGCCAGCGGTGATGCAGGGGGCGGAGACACCCAGTACTTT,11072,2,clonotype52,clonotype52_consensus_1 +GTTACAGAGAGGTACC-1,True,GTTACAGAGAGGTACC-1_contig_1,True,520,TRB,TRBV13-3,None,TRBJ1-2,TRBC1,True,True,CASSERQNSDYTF,TGTGCCAGCAGTGAGAGACAGAACTCCGACTACACCTTC,54776,6,clonotype53,clonotype53_consensus_1 +GTTACAGAGAGGTACC-1,True,GTTACAGAGAGGTACC-1_contig_2,True,579,TRA,TRAV12D-2,None,TRAJ15,TRAC,True,True,CALSDYQGGRALIF,TGTGCTTTGAGTGACTACCAGGGAGGCAGAGCTCTGATATTT,11142,2,clonotype53,clonotype53_consensus_2 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_1,True,512,TRA,TRAV6-5,None,TRAJ5,TRAC,True,True,CALGDTQVVGQLTF,TGTGCTCTGGGTGACACACAGGTTGTGGGGCAGCTCACTTTC,364,10,clonotype54,clonotype54_consensus_1 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_2,True,513,TRB,TRBV31,None,TRBJ1-3,TRBC1,True,True,CAWRGGGGNTLYF,TGTGCCTGGCGGGGGGGGGGAGGAAATACGCTCTATTTT,3084,42,clonotype54,clonotype54_consensus_2 +GTTACAGCATTCGACA-1,True,GTTACAGCATTCGACA-1_contig_3,True,502,TRA,TRAV12-1,None,TRAJ11,TRAC,True,False,CPVLLCSNSGYNKLTF,TGCCCTGTACTACTGTGCTCTAACTCGGGATACAACAAACTCACTTTT,122,2,clonotype54,None +GTTCATTAGGATGTAT-1,True,GTTCATTAGGATGTAT-1_contig_1,True,503,TRA,TRAV6-6,None,TRAJ31,TRAC,True,True,CALGERNRIFF,TGTGCTCTGGGTGAGAGGAACAGAATCTTCTTT,38208,6,clonotype55,clonotype55_consensus_2 +GTTCATTAGGATGTAT-1,True,GTTCATTAGGATGTAT-1_contig_2,True,541,TRB,TRBV12-2+TRBV13-2,None,TRBJ2-5,TRBC2,True,True,CASGGLAQDTQYF,TGTGCCAGCGGGGGACTGGCCCAAGACACCCAGTACTTT,8032,2,clonotype55,clonotype55_consensus_1 +GTTCATTAGGATGTAT-1,True,GTTCATTAGGATGTAT-1_contig_3,True,546,TRA,TRAV6-6,None,TRAJ17,TRAC,True,True,CALSGPNSAGNKLTF,TGTGCTCTGAGTGGACCTAACAGTGCAGGGAACAAGCTAACTTTT,29782,6,clonotype55,clonotype55_consensus_3 +TAAGAGACACCGCTAG-1,True,TAAGAGACACCGCTAG-1_contig_1,True,524,TRA,TRAV6D-4,None,TRAJ26,TRAC,True,True,CALVDYNYAQGLTF,TGTGCTCTGGTTGATTATAACTATGCCCAGGGATTAACCTTC,10508,5,clonotype56,clonotype56_consensus_2 +TAAGAGACACCGCTAG-1,True,TAAGAGACACCGCTAG-1_contig_2,True,565,TRB,TRBV1,None,TRBJ1-1,TRBC1,True,True,CTCSAGEGTEVFF,TGCACCTGCAGTGCCGGGGAAGGCACAGAAGTCTTCTTT,56976,20,clonotype56,clonotype56_consensus_1 +TAAGAGACACCGCTAG-1,True,TAAGAGACACCGCTAG-1_contig_3,True,630,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,9350,5,clonotype56,None +TAAGTGCCAACTGCTA-1,True,TAAGTGCCAACTGCTA-1_contig_1,True,582,TRB,TRBV12-2+TRBV13-2,None,TRBJ1-6,TRBC1,True,True,CASGDEGAHSYNSPLYF,TGTGCCAGCGGTGATGAGGGGGCCCATTCCTATAATTCGCCCCTCTACTTT,58758,8,clonotype57,clonotype57_consensus_1 +TAAGTGCCAACTGCTA-1,True,TAAGTGCCAACTGCTA-1_contig_2,True,903,TRB,TRBV20,None,TRBJ2-7,TRBC2,True,False,None,None,12106,2,clonotype57,None +TACTCATCAGACGCTC-1,True,TACTCATCAGACGCTC-1_contig_1,True,522,TRB,TRBV17,None,TRBJ2-1,TRBC2,True,True,CASRRQGYAEQFF,TGTGCTAGCAGGAGACAGGGCTATGCTGAGCAGTTCTTC,45272,6,clonotype58,clonotype58_consensus_1 +TACTCATCAGACGCTC-1,True,TACTCATCAGACGCTC-1_contig_2,True,531,TRA,TRAV6-3,None,TRAJ33,TRAC,True,True,CAMRDRSNYQLIW,TGTGCTATGAGAGATAGGAGCAACTATCAGTTGATCTGG,32794,4,clonotype58,clonotype58_consensus_2 +TACTTACGTAGCCTCG-1,True,TACTTACGTAGCCTCG-1_contig_1,True,511,TRA,TRAV4-2,None,TRAJ40,TRAC,True,True,CAAYTGNYKYVF,TGTGCTGCTTATACAGGAAACTACAAATACGTCTTT,42280,4,clonotype59,clonotype59_consensus_1 +TACTTACGTAGCCTCG-1,True,TACTTACGTAGCCTCG-1_contig_2,True,370,TRB,TRBV13-2,None,TRBJ2-3,TRBC2,True,False,CASGSGTGAAETLYF,TGTGCCAGCGGGTCCGGGACAGGGGCAGCAGAAACGCTGTATTTT,34624,1,clonotype59,None +TAGCCGGGTTGGTGGA-1,True,TAGCCGGGTTGGTGGA-1_contig_1,True,534,TRB,TRBV13-3,None,TRBJ2-7,TRBC2,True,True,CASSDWTGKTYEQYF,TGTGCCAGCAGTGATTGGACAGGGAAGACCTATGAACAGTACTTC,61316,4,clonotype60,clonotype60_consensus_2 +TAGCCGGGTTGGTGGA-1,True,TAGCCGGGTTGGTGGA-1_contig_2,True,527,TRA,TRAV6-4,None,TRAJ52,TRAC,True,True,CALVDRGANTGKLTF,TGTGCTCTGGTTGATCGGGGAGCTAACACTGGAAAGCTCACGTTT,17816,1,clonotype60,clonotype60_consensus_1 +TAGTTGGAGTGTACCT-1,True,TAGTTGGAGTGTACCT-1_contig_1,True,672,TRB,TRBV19,None,TRBJ1-1,TRBC1,True,True,CASRTGVNTEVFF,TGTGCCAGCAGGACAGGGGTAAACACAGAAGTCTTCTTT,31254,2,clonotype61,clonotype61_consensus_1 +TAGTTGGAGTGTACCT-1,True,TAGTTGGAGTGTACCT-1_contig_2,True,333,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,47520,2,clonotype61,None +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_1,True,543,TRA,TRAV15-1-DV6-1,None,TRAJ33,TRAC,True,True,CALWEPYMDSNYQLIW,TGTGCTCTCTGGGAGCCCTACATGGATAGCAACTATCAGTTGATCTGG,156,2,clonotype62,clonotype62_consensus_1 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_2,True,522,TRB,TRBV5,None,TRBJ2-7,TRBC2,True,True,CASSPGLGDSYEQYF,TGTGCCAGCAGCCCGGGACTGGGGGACTCCTATGAACAGTACTTC,744,7,clonotype62,clonotype62_consensus_2 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_3,True,602,TRA,TRAV14D-2,None,TRAJ33,TRAC,True,False,CALWEPYMDSNYQLIW,TGTGCTCTCTGGGAGCCCTACATGGATAGCAACTATCAGTTGATCTGG,190,3,clonotype62,clonotype62_consensus_1 +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_4,True,309,TRA,None,None,TRAJ11,TRAC,False,False,None,None,164,1,clonotype62,None +TAGTTGGTCCCAAGTA-1,True,TAGTTGGTCCCAAGTA-1_contig_5,True,305,TRA,None,None,TRAJ34,TRAC,False,False,None,None,350,5,clonotype62,None +TATTACCTCCACTCCA-1,True,TATTACCTCCACTCCA-1_contig_1,True,603,TRB,TRBV13-3,None,TRBJ1-4,TRBC1,True,True,CASSDKGRFNERLFF,TGTGCCAGCAGTGATAAGGGGCGTTTCAACGAAAGATTATTTTTC,56988,6,clonotype63,clonotype63_consensus_2 +TATTACCTCCACTCCA-1,True,TATTACCTCCACTCCA-1_contig_2,True,559,TRA,TRAV14D-1,None,TRAJ33,TRAC,True,True,CAASLDSNYQLIW,TGTGCAGCAAGTCTGGATAGCAACTATCAGTTGATCTGG,16764,5,clonotype63,clonotype63_consensus_1 +TCGTAGATCACGCGGT-1,True,TCGTAGATCACGCGGT-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGQGNTEVFF,TGTGCCAGCAGCCCCGGACAGGGGAACACAGAAGTCTTCTTT,1344,12,clonotype64,clonotype64_consensus_1 +TCGTAGATCACGCGGT-1,True,TCGTAGATCACGCGGT-1_contig_2,True,527,TRA,TRAV6N-7,None,TRAJ34,TRAC,True,False,CTTVLFNTDKVVF,TGTACTACTGTGCTCTTCAATACCGACAAAGTCGTCTTT,86,1,clonotype64,None +TCTCTAAAGCCCAACC-1,True,TCTCTAAAGCCCAACC-1_contig_1,True,519,TRB,TRBV17,None,TRBJ2-2,TRBC2,True,True,CASSRQTGQLYF,TGTGCTAGCAGTAGACAAACCGGGCAGCTCTACTTT,49942,8,clonotype65,clonotype65_consensus_1 +TCTCTAAAGCCCAACC-1,True,TCTCTAAAGCCCAACC-1_contig_2,True,635,TRA,TRAV9-4,None,TRAJ32,TRAC,True,False,None,None,28410,3,clonotype65,None +TCTGAGAGTGACAAAT-1,True,TCTGAGAGTGACAAAT-1_contig_1,True,695,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASSKTGGAEQFF,TGTGCCAGCAGTAAGACAGGGGGAGCTGAGCAGTTCTTC,55050,9,clonotype66,clonotype66_consensus_1 +TCTGAGAGTGACAAAT-1,True,TCTGAGAGTGACAAAT-1_contig_2,True,564,TRA,TRAV16N,None,TRAJ22,TRAC,True,True,CAMREESSGSWQLIF,TGTGCTATGAGAGAGGAATCTTCTGGCAGCTGGCAACTCATCTTT,22510,2,clonotype66,clonotype66_consensus_2 +TGAAAGAGTGTTGGGA-1,True,TGAAAGAGTGTTGGGA-1_contig_1,True,518,TRA,TRAV7D-5,None,TRAJ52,TRAC,True,True,CAITGANTGKLTF,TGTGCAATCACTGGAGCTAACACTGGAAAGCTCACGTTT,36010,6,clonotype67,clonotype67_consensus_1 +TGACTAGTCGAGAACG-1,True,TGACTAGTCGAGAACG-1_contig_1,True,550,TRA,TRAV10D,None,TRAJ45,TRAC,True,True,CAAGAGGADRLTF,TGTGCAGCTGGGGCAGGAGGTGCAGATAGACTCACCTTT,214,3,clonotype68,clonotype68_consensus_2 +TGACTAGTCGAGAACG-1,True,TGACTAGTCGAGAACG-1_contig_2,True,571,TRB,TRBV1,None,TRBJ2-3,TRBC2,True,True,CTCSADLVSAETLYF,TGCACCTGCAGTGCAGATCTAGTTAGTGCAGAAACGCTGTATTTT,2478,22,clonotype68,clonotype68_consensus_1 +TGAGCCGAGCAGGTCA-1,True,TGAGCCGAGCAGGTCA-1_contig_1,True,508,TRA,TRAV6-5,None,TRAJ49,TRAC,True,True,CALSDPGYQNFYF,TGTGCTCTGAGTGATCCGGGTTACCAGAACTTCTATTTT,41972,6,clonotype69,clonotype69_consensus_1 +TGAGCCGCAGTAAGCG-1,True,TGAGCCGCAGTAAGCG-1_contig_1,True,519,TRB,TRBV5,None,TRBJ1-1,TRBC1,True,True,CASSPGTGNTEVFF,TGTGCCAGCAGCCCCGGGACAGGAAACACAGAAGTCTTCTTT,196,2,clonotype70,clonotype70_consensus_1 +TGAGCCGCAGTAAGCG-1,True,TGAGCCGCAGTAAGCG-1_contig_2,True,666,TRB,None,None,TRBJ2-7,TRBC2,False,False,None,None,838,6,clonotype70,None +TGAGCCGCAGTAAGCG-1,True,TGAGCCGCAGTAAGCG-1_contig_3,True,491,TRA,TRAV12D-2,None,TRAJ17,TRAC,True,False,None,None,186,3,clonotype70,None +TGCCCTACACTTAAGC-1,True,TGCCCTACACTTAAGC-1_contig_1,True,521,TRB,TRBV13-1,None,TRBJ2-2,TRBC2,True,True,CASSDDGADTGQLYF,TGTGCCAGCAGTGATGATGGGGCGGACACCGGGCAGCTCTACTTT,44330,5,clonotype71,clonotype71_consensus_1 +TGCCCTACACTTAAGC-1,True,TGCCCTACACTTAAGC-1_contig_2,True,525,TRA,TRAV6-3,None,TRAJ11,TRAC,True,True,CPDSGYNKLTF,TGCCCTGACTCGGGATACAACAAACTCACTTTT,26432,3,clonotype71,clonotype71_consensus_2 +TGCGGGTGTGACAAAT-1,True,TGCGGGTGTGACAAAT-1_contig_1,True,651,TRB,TRBV19,None,TRBJ2-3,TRBC2,True,True,CASSLGSAETLYF,TGTGCCAGCAGCCTCGGTAGTGCAGAAACGCTGTATTTT,23746,2,clonotype72,clonotype72_consensus_1 +TGCGGGTGTGACAAAT-1,True,TGCGGGTGTGACAAAT-1_contig_2,True,575,TRA,TRAV4-4-DV10,None,TRAJ32,TRAC,True,True,CAAEGYGGSGNKLIF,TGTGCTGCTGAGGGGTATGGGGGCAGTGGCAACAAGCTCATCTTT,35200,3,clonotype72,clonotype72_consensus_2 +TGCGGGTGTGACAAAT-1,True,TGCGGGTGTGACAAAT-1_contig_3,True,356,TRB,None,None,TRBJ2-1,TRBC2,False,False,None,None,17744,1,clonotype72,None +TGGACGCTCGCGTAGC-1,True,TGGACGCTCGCGTAGC-1_contig_1,True,549,TRB,TRBV16,None,TRBJ1-1,TRBC1,True,True,CASSLDGEITEVFF,TGTGCAAGCAGCTTAGACGGGGAGATCACAGAAGTCTTCTTT,75518,5,clonotype73,clonotype73_consensus_1 +TGGCCAGCATGCATGT-1,True,TGGCCAGCATGCATGT-1_contig_1,True,568,TRB,TRBV1,None,TRBJ2-1,TRBC2,True,True,CTCSAQGAYAEQFF,TGCACCTGCAGTGCTCAGGGGGCCTATGCTGAGCAGTTCTTC,68510,12,clonotype74,clonotype74_consensus_1 +TGGCCAGCATGCATGT-1,True,TGGCCAGCATGCATGT-1_contig_2,True,521,TRA,TRAV6D-4,None,TRAJ17,TRAC,True,True,CALTNSAGNKLTF,TGTGCTCTCACTAACAGTGCAGGGAACAAGCTAACTTTT,10388,2,clonotype74,clonotype74_consensus_2 +TGGCTGGAGCGATAGC-1,True,TGGCTGGAGCGATAGC-1_contig_1,True,518,TRB,TRBV13-1,None,TRBJ2-1,TRBC2,True,True,CASSLGQGIAEQFF,TGTGCCAGCAGTCTCGGACAGGGGATTGCTGAGCAGTTCTTC,48066,4,clonotype75,clonotype75_consensus_2 +TGGCTGGAGCGATAGC-1,True,TGGCTGGAGCGATAGC-1_contig_2,True,504,TRA,TRAV21-DV12,None,TRAJ49,TRAC,True,True,CILRVAGGYQNFYF,TGTATCCTGAGAGTAGCGGGGGGTTACCAGAACTTCTATTTT,29136,3,clonotype75,clonotype75_consensus_1 +TGTGGTAGTATAGGGC-1,True,TGTGGTAGTATAGGGC-1_contig_1,True,524,TRB,TRBV13-3,None,TRBJ2-1,TRBC2,True,True,CASSAQNYAEQFF,TGTGCCAGCAGTGCCCAGAACTATGCTGAGCAGTTCTTC,49408,4,clonotype76,clonotype76_consensus_1 +TGTTCCGGTTAAGAAC-1,True,TGTTCCGGTTAAGAAC-1_contig_1,True,504,TRA,TRAV21-DV12,None,TRAJ32,TRAC,True,True,CILNYGGSGNKLIF,TGTATCCTGAATTATGGGGGCAGTGGCAACAAGCTCATCTTT,29102,4,clonotype77,clonotype77_consensus_1 +TGTTCCGGTTAAGAAC-1,True,TGTTCCGGTTAAGAAC-1_contig_2,True,524,TRB,TRBV31,None,TRBJ2-3,TRBC2,True,True,CAWPGLGGRTLYF,TGTGCCTGGCCGGGACTGGGGGGCAGAACGCTGTATTTT,15834,1,clonotype77,clonotype77_consensus_2 +TGTTCCGGTTAAGAAC-1,True,TGTTCCGGTTAAGAAC-1_contig_3,True,1009,TRB,TRBV12-2,None,TRBJ2-5,TRBC2,True,False,None,None,15210,2,clonotype77,None +TGTTCCGGTTAAGAAC-1,True,TGTTCCGGTTAAGAAC-1_contig_4,True,510,TRA,TRAV4-4-DV10,None,TRAJ53,TRAC,True,False,None,None,18228,1,clonotype77,None +TTAGGACAGTACGACG-1,True,TTAGGACAGTACGACG-1_contig_1,True,576,TRA,TRAV12D-1,None,TRAJ13,TRAC,True,True,CALRPSGTYQRF,TGTGCTTTGAGGCCTTCTGGGACTTACCAGAGGTTT,27106,9,clonotype78,clonotype78_consensus_1 +TTAGGCAAGAAACGAG-1,True,TTAGGCAAGAAACGAG-1_contig_1,True,630,TRB,TRBV19,None,TRBJ2-1,TRBC2,True,True,CASSKTGGAEQFF,TGTGCCAGCAGTAAGACAGGGGGAGCTGAGCAGTTCTTC,46832,4,clonotype79,clonotype79_consensus_1 +TTAGTTCCAATTCCTT-1,True,TTAGTTCCAATTCCTT-1_contig_1,True,558,TRB,TRBV13-3,None,TRBJ2-3,TRBC2,True,True,CASSEPGGRAETLYF,TGTGCCAGCAGTGAGCCTGGGGGGCGTGCAGAAACGCTGTATTTT,73908,8,clonotype80,clonotype80_consensus_1 diff --git a/tests/testthat/helper-Process_Raw_Data.R b/tests/testthat/helper-Process_Raw_Data.R index 3ce7797..752b5cc 100755 --- a/tests/testthat/helper-Process_Raw_Data.R +++ b/tests/testthat/helper-Process_Raw_Data.R @@ -31,7 +31,9 @@ getParamRaw <- function(data){ sep = '\t') input=list.files( - test_path(paste0("fixtures/",data,"/h5files")),".h5",full.names = T) + test_path(paste0("fixtures/",data,"/h5files")),"",full.names = T) + # input=list.files( + # test_path(paste0("fixtures/",data,"/h5files")),".h5",full.names = T) organism = "Mouse" sample.metadata.table= test_path(paste0("fixtures/",data,"/",data,"_metadata.txt")) diff --git a/tests/testthat/test-Process_Raw_Data.R b/tests/testthat/test-Process_Raw_Data.R index d72c074..79b9758 100755 --- a/tests/testthat/test-Process_Raw_Data.R +++ b/tests/testthat/test-Process_Raw_Data.R @@ -1,4 +1,4 @@ -for (data in c('TEC','Chariou','NSCLC_Multi')) {#,'PBMC_Single')) { +for (data in c('TEC','NSCLC_Multi')) {#,'PBMC_Single')) { test_that(paste0("Test Filter and QC - Standard (",data," dataset)"), { @@ -23,6 +23,62 @@ for (data in c('TEC','Chariou','NSCLC_Multi')) {#,'PBMC_Single')) { } +################################################################ + +for (data in c('Chariou')) { + + test_that(paste0("Test Filter and QC - TCR data for (",data," dataset)"), { + + + data.run <- getParamRaw(data) + Raw.out <- do.call(processRawData, data.run) + + # create output + expected.elements = c("object","plots") + expect_setequal(names(Raw.out), expected.elements) + # SO contains object same length as input + expect_equal(length(Raw.out$object),length(grep('\\.h5',data.run$input,value = T))) + # figure slot is a ggplot + expect_equal(class(Raw.out$plots[[1]])[2], 'ggplot') + # SO slot contains data + expect( object.size(Raw.out$object[[1]]@assays$RNA@counts),'> 0' ) + # plot slot contains data + expect( object.size(Raw.out$plots),'= 0' ) + + TCRmeta=c("ab_pair","cell_beta_seq_list","cell_beta_reads_list", + "cell_unique_betas","cell_TRBV_list", + "cell_TRBJ_list","cell_alpha_seq_list","cell_alpha_reads_list", + "cell_unique_alphas", "isPolyAlphaCell", + "isPolyBetaCell","cell_top_beta","cell_TRBV", + "cell_TRBJ","cell_top_alpha", + "cell_TRAV","cell_TRAJ","clonotype_id", + "summarized_cell_top_alpha", "summarized_cell_top_beta", + "summarized_clonotype_id") + for (n in names(Raw.out$object)) { + so=Raw.out$object[[n]] + # check if TCR metadata columns have been added + expect_true(all(TCRmeta%in%colnames(so@meta.data)), + label = paste0("Sample: ",n, + " Metadata table not updated with TCR data")) + # Check if TCR Metadata Columns contain data + + TCRtbl=so@meta.data[!is.na(so@meta.data[,TCRmeta[1]]),TCRmeta,drop=F] + # Check if TCR data is added + expect_gt(nrow(TCRtbl),0, + label = paste0("Sample: ",n, " TCR data Not Added")) + # Check if TCR data is added + expect_equal(nrow(TCRtbl[rowSums(is.na(TCRtbl))>0,]),0 , + label = paste0("Sample: ",n, + " TCR data contains missing values")) + + } + + }) + +} + + + ################################################################ for (data in c('TEC')) { @@ -39,7 +95,7 @@ for (data in c('TEC')) { expected.elements = c("object","plots") expect_setequal(names(Raw.out), expected.elements) # SO contains object same length as input - expect_false(equals(length(Raw.out$object),length(data.run$input))) + expect_equal(length(Raw.out$object),2) # figure slot is a ggplot expect_equal(class(Raw.out$plots[[1]])[2], 'ggplot') # SO slot contains data From 36e797b56cbe5f0f9d9c53e2816ee6bf7ded316a Mon Sep 17 00:00:00 2001 From: Philip Homan Date: Tue, 22 Aug 2023 16:02:48 -0400 Subject: [PATCH 2/4] Test update --- R/Process_Raw_Data.R | 1 + 1 file changed, 1 insertion(+) diff --git a/R/Process_Raw_Data.R b/R/Process_Raw_Data.R index bfc43c6..8a9d352 100755 --- a/R/Process_Raw_Data.R +++ b/R/Process_Raw_Data.R @@ -707,3 +707,4 @@ processRawData <- function(input, + From b12fe6d829141f00dc0f66acbf383bee2d3c41fd Mon Sep 17 00:00:00 2001 From: Philip Homan Date: Fri, 25 Aug 2023 15:37:20 -0400 Subject: [PATCH 3/4] Correct error with if_else using old dplyr 1.0.9 syntaxx, Reorder operations, orig.ident and rename columns rearanged in so metadata --- R/Process_Raw_Data.R | 453 ++++++++++++++++++++++--------------------- 1 file changed, 235 insertions(+), 218 deletions(-) diff --git a/R/Process_Raw_Data.R b/R/Process_Raw_Data.R index 8a9d352..7d2b617 100755 --- a/R/Process_Raw_Data.R +++ b/R/Process_Raw_Data.R @@ -7,7 +7,9 @@ #' Seurat Single Cell analysis. #' #' @param input Input can be a vector of scRNA-Seq .h5 files, or a list of -#' seurat objects for each sample. vector should include file path. +#' seurat objects for each sample. TCRseq Metadata .csv files can also be +#' included and will be added to the corrisponding sample seurat object. +#' Vector of files should include entire file path. #' @param sample.metadata.table A table of sample metadata that you want to #' append to the already-existing metadata within the input Seurat Object(s). #' (optional) @@ -32,11 +34,13 @@ #' (Default: TRUE) #' #' -#' @importFrom Seurat CreateAssayObject Idents as.SingleCellExperiment AddMetaData +#' @importFrom Seurat CreateAssayObject Idents as.SingleCellExperiment +#' @importFrom Seurat AddMetaData #' @importFrom reshape2 melt #' @importFrom magrittr %>% #' @importFrom stringr str_to_title -#' @importFrom dplyr summarise +#' @importFrom dplyr summarise filter arrange select mutate desc +#' @importFrom dplyr if_else row_number relocate #' @importFrom tidyr fill #' @importFrom ggplot2 ggplot #' @importFrom RColorBrewer brewer.pal @@ -167,160 +171,163 @@ processRawData <- function(input, return(so.nf) } -### process and add TCRdata - .addTCR <- function(x) { - # x=sample.names[1] - so=so.orig.nf[[x]] - df=tcr.list[[x]] - df$sample_name <- x - - df$is_cell <- as.logical(df$is_cell) - df$productive <- as.logical(df$productive) - df$high_confidence <- as.logical(df$high_confidence) - df$full_length <- as.logical(df$high_confidence) - - - #filter down to only high confidence,productive contigs with - #sequencable proteins - df <- df[which(df$high_confidence==T & df$cdr3!="None" & df$productive==T ),] - - #collapse beta reads - betaSeq <- df %>% - group_by(barcode) %>% - dplyr::filter(chain == "TRB") %>% - summarise(cell_beta_seq_list = toString((unique(cdr3))), - cell_beta_reads_list = toString(list(reads)), - cell_unique_betas = n_distinct(c(cdr3)), - cell_TRBV_list =toString(unique(v_gene)), - cell_TRBJ_list =toString(unique(j_gene)) - ) - #collapse beta reads - alphaSeq <- df %>% - group_by(barcode) %>% - dplyr::filter(chain == "TRA") %>% - summarise(cell_alpha_seq_list = toString(unique(cdr3)), - cell_alpha_reads_list = toString(list(reads)), - cell_unique_alphas =n_distinct(c(cdr3)), - cell_TRAV_list =paste(c(v_gene),collapse = ", "), - cell_TRAJ_list =paste(c(j_gene),collapse = ", ") - ) - - outdf <- merge(betaSeq,alphaSeq,by = "barcode") - #add marker columns for cells with multiple alpha or beta sequence - outdf <- outdf %>% - group_by(barcode) %>% - mutate(isPolyAlphaCell = if_else(cell_unique_alphas >1,TRUE,FALSE), - isPolyBetaCell = if_else(cell_unique_betas >1,TRUE,FALSE) - ) - - #get the top beta sequence by read - topBetadf <- df %>% - group_by(barcode) %>% - dplyr::filter(chain == "TRB") %>% - arrange(desc(reads)) %>% - mutate(cell_top_beta = if_else((row_number()== 1L),cdr3,NULL), - cell_TRBV = if_else((row_number()== 1L),v_gene,NULL), - cell_TRBJ = if_else((row_number()== 1L),j_gene,NULL)) %>% - dplyr::select(barcode, cell_top_beta,cell_TRBV,cell_TRBJ) %>% - fill(cell_top_beta,.direction = "updown") %>% - fill(cell_TRBV,.direction = "updown") %>% - fill(cell_TRBJ,.direction = "updown") - - outdf <- merge(outdf,topBetadf,by = "barcode") - - #get top alpha - topAlphadf <- df %>% - group_by(barcode) %>% - dplyr::filter(chain == "TRA") %>% - arrange(desc(reads)) %>% - mutate(cell_top_alpha = if_else((row_number()== 1L),cdr3,NULL), - cell_TRAV = if_else((row_number()== 1L),v_gene,NULL), - cell_TRAJ = if_else((row_number()== 1L),j_gene,NULL)) %>% - dplyr::select(barcode, cell_top_alpha,cell_TRAV,cell_TRAJ) %>% - fill(cell_top_alpha,.direction = "updown") %>% - fill(cell_TRAV,.direction = "updown") %>% - fill(cell_TRAJ,.direction = "updown") - - - outdf <- merge(outdf,topAlphadf,by = "barcode") %>% - dplyr::select(barcode, everything()) %>% - distinct() - - - - df <- outdf - - #reannotate clonotypes as distinct ab_pairs - df <- df %>% - mutate(ab_pair = paste(cell_top_alpha,cell_top_beta,sep="&")) - - ab_pair_df <- df %>% - dplyr::select(ab_pair) %>% - distinct() %>% - mutate(clonotype_id = paste("clonotype",row_number(),sep="")) - - #merge this back into the data frame - df = merge(df,ab_pair_df, by = "ab_pair") - - #summarize cell level data if you have not called Integrate - #TCR cluster template - colsToSummarize <- c("cell_top_alpha", - "cell_top_beta", - "clonotype_id", - "vdj_clonotype_id") - summarizeCutOff <- min(10,18) - - for (i in colsToSummarize) { - col <- df[[i]] - valCount <- length(unique(col)) - - if ((valCount >=summarizeCutOff) & - (!is.element(class(df[[i]][1]),c("numeric","integer")))) + ### process and add TCRdata + .addTCR <- function(x) { + # x=sample.names[1] + so=so.orig.nf[[x]] + df=tcr.list[[x]] + df$sample_name <- x + + df$is_cell <- as.logical(df$is_cell) + df$productive <- as.logical(df$productive) + df$high_confidence <- as.logical(df$high_confidence) + df$full_length <- as.logical(df$high_confidence) + + + #filter down to only high confidence,productive contigs with + #sequencable proteins + df <- df[which(df$high_confidence==T & df$cdr3!="None" & df$productive==T ),] + + #collapse beta reads + betaSeq <- df %>% + group_by(barcode) %>% + filter(chain == "TRB") %>% + summarise(cell_beta_seq_list = toString((unique(cdr3))), + cell_beta_reads_list = toString(list(reads)), + cell_unique_betas = n_distinct(c(cdr3)), + cell_TRBV_list =toString(unique(v_gene)), + cell_TRBJ_list =toString(unique(j_gene)) + ) + + #collapse alpha reads + alphaSeq <- df %>% + group_by(barcode) %>% + filter(chain == "TRA") %>% + summarise(cell_alpha_seq_list = toString(unique(cdr3)), + cell_alpha_reads_list = toString(list(reads)), + cell_unique_alphas =n_distinct(c(cdr3)), + cell_TRAV_list =paste(c(v_gene),collapse = ", "), + cell_TRAJ_list =paste(c(j_gene),collapse = ", ") + ) + + outdf <- merge(betaSeq,alphaSeq,by = "barcode") + + #add marker columns for cells with multiple alpha or beta sequence + outdf <- outdf %>% + group_by(barcode) %>% + mutate(isPolyAlphaCell = if_else(cell_unique_alphas >1,TRUE,FALSE), + isPolyBetaCell = if_else(cell_unique_betas >1,TRUE,FALSE) + ) + + + #get the top beta sequence by read + topBetadf <- df %>% + group_by(barcode) %>% + filter(chain == "TRB") %>% + arrange(desc(reads)) %>% + mutate(cell_top_beta = if_else((row_number()== 1L),cdr3,NA), + cell_TRBV = if_else((row_number()== 1L),v_gene,NA), + cell_TRBJ = if_else((row_number()== 1L),j_gene,NA)) %>% + select(barcode, cell_top_beta,cell_TRBV,cell_TRBJ) %>% + fill(cell_top_beta,.direction = "updown") %>% + fill(cell_TRBV,.direction = "updown") %>% + fill(cell_TRBJ,.direction = "updown") + + + outdf <- merge(outdf,topBetadf,by = "barcode") + + #get top alpha + topAlphadf <- df %>% + group_by(barcode) %>% + filter(chain == "TRA") %>% + arrange(desc(reads)) %>% + mutate(cell_top_alpha = if_else((row_number()== 1L),cdr3,NA), + cell_TRAV = if_else((row_number()== 1L),v_gene,NA), + cell_TRAJ = if_else((row_number()== 1L),j_gene,NA)) %>% + select(barcode, cell_top_alpha,cell_TRAV,cell_TRAJ) %>% + fill(cell_top_alpha,.direction = "updown") %>% + fill(cell_TRAV,.direction = "updown") %>% + fill(cell_TRAJ,.direction = "updown") + + + outdf <- merge(outdf,topAlphadf,by = "barcode") %>% + select(barcode, everything()) %>% + distinct() + + + df <- outdf + + #reannotate clonotypes as distinct ab_pairs + df <- df %>% + mutate(ab_pair = paste(cell_top_alpha,cell_top_beta,sep="&")) + + ab_pair_df <- df %>% + select(ab_pair) %>% + distinct() %>% + mutate(clonotype_id = paste("clonotype",row_number(),sep="")) + + #merge this back into the data frame + df = merge(df,ab_pair_df, by = "ab_pair") + + #summarize cell level data if you have not called Integrate + #TCR cluster template + colsToSummarize <- c("cell_top_alpha", + "cell_top_beta", + "clonotype_id", + "vdj_clonotype_id") + summarizeCutOff <- min(10,18) + + for (i in colsToSummarize) { + col <- df[[i]] + valCount <- length(unique(col)) + + if ((valCount >=summarizeCutOff) & + (!is.element(class(df[[i]][1]),c("numeric","integer")))) { - freqVals <- as.data.frame(-sort(-table(col)))$col[1:summarizeCutOff] - summarized_col = list() - count <- 0 - for (j in col) { - - if (is.na(j) || is.null(j) || (j =="None")) { - count <- count + 1 - summarized_col[count] <- "NULLorNA" - #print("NULLorNA") - } else if (j %in% freqVals){ - count <- count + 1 - summarized_col[count] <- j - #print("valid") - } else { - count <- count + 1 - summarized_col[count] <- "Other" - #print("Other") + freqVals <- as.data.frame(-sort(-table(col)))$col[1:summarizeCutOff] + summarized_col = list() + count <- 0 + for (j in col) { + + if (is.na(j) || is.null(j) || (j =="None")) { + count <- count + 1 + summarized_col[count] <- "NULLorNA" + #print("NULLorNA") + } else if (j %in% freqVals){ + count <- count + 1 + summarized_col[count] <- j + #print("valid") + } else { + count <- count + 1 + summarized_col[count] <- "Other" + #print("Other") + } } + newName = paste("summarized_",i,sep="") + df[[newName]] <- unlist(summarized_col) } - newName = paste("summarized_",i,sep="") - df[[newName]] <- unlist(summarized_col) + print("Passed all filters...") } - print("Passed all filters...") - } - df <- df %>% dplyr::select(barcode,everything()) - df <- as.data.frame(df) - - df <- df %>% mutate_if(is.list, as.character) - - - ### Add Metadata to SO - - if (FALSE%in%grepl('G|T|C|A',unique(df$barcode))>1) { - stop("Error Processing TCR data: TCR metadata is empty") - } - - rownames(df)=df$barcode - df=df[,!colnames(df)%in%'barcode'] - - so=AddMetaData(so,df) - # so.orig.nf3=so.orig.nf - so@meta.data=replace(so@meta.data, is.na(so@meta.data), "Not captured") - - return(so) + df <- df %>% select(barcode,everything()) + df <- as.data.frame(df) + + df <- df %>% mutate_if(is.list, as.character) + + + ### Add Metadata to SO + + if (FALSE%in%grepl('G|T|C|A',unique(df$barcode))>1) { + stop("Error Processing TCR data: TCR metadata is empty") + } + + rownames(df)=df$barcode + df=df[,!colnames(df)%in%'barcode'] + + so=AddMetaData(so,df) + # so.orig.nf3=so.orig.nf + so@meta.data=replace(so@meta.data, is.na(so@meta.data), "Not captured") + + return(so) } ## --------------- ## @@ -343,58 +350,58 @@ processRawData <- function(input, ### Create SO object depending on class of input SOs. if(class(input)=='RFilePaths'){ print(paste0('File Type: ',class(input))) - input.dat <- input$value[grepl("\\.h5",input$value)] - input.tcr <- input$value[grepl("\\.csv",input$value)] + input.dat <- input$value[grepl("*h5$",input$value)] + input.tcr <- input$value[grepl("*csv$",input$value)] obj.list = lapply(input.dat, - function(x){ return(Read10X_h5(x, use.names=TRUE)) }) + function(x){ return(Read10X_h5(x, use.names=TRUE)) }) tcr.list = lapply(input.tcr, - function(x){return(read.delim(x,sep=",", header = T))}) + function(x){return(read.csv(x, header = T))}) }else if(class(input)=='FoundryTransformInput'){ print(paste0('File Type: ',class(input))) - input.dat=nidapGetFiles(input,'\\.h5') - input.tcr=nidapGetFiles(input,'\\.csv') + input.dat=nidapGetFiles(input,'*h5$') + input.tcr=nidapGetFiles(input,'*csv$') obj.list <- lapply(input.dat, function(x) { return(Read10X_h5(x, use.names=TRUE)) }) if (length(input.tcr)>0) { tcr.list = lapply(input.tcr, - function(x){return(read.delim(x,sep=",", header = T))}) + function(x){return(read.csv(x, header = T))}) } } else if(class(input)=='character'){ - if (sum(grepl('\\.rds',input))==1) { + if (sum(grepl('*rds$',input))==1) { ## Log output. cat("1. Reading Seurat Object from dataset: seurat_object.rds\n\n") - input.dat=input[grepl('\\.rds',input)] - input.tcr=input[grepl('\\.csv',input)] + input.dat=input[grepl('*rds$',input)] + input.tcr=input[grepl('*csv$',input)] obj.list <- lapply(input.dat, function(x) { return(readRDS(x)) }) if (length(input.tcr)>0) { tcr.list = lapply(input.tcr, - function(x){return(read.delim(x,sep=",", header = T))}) + function(x){return(read.delim(x,sep=",", header = T))}) } - } else if (sum(grepl('\\.h5',input))>0){ + } else if (sum(grepl('*h5$',input))>0){ ## Log output. cat("1. Processing .h5 files from dataset \n\n") - input.dat=input[grepl('\\.h5',input)] - input.tcr=input[grepl('\\.csv',input)] + input.dat=input[grepl('*h5$',input)] + input.tcr=input[grepl('*csv$',input)] obj.list <- lapply(input.dat, function(x) { return(Read10X_h5(x, use.names=TRUE)) }) if (length(input.tcr)>0) { tcr.list = lapply(input.tcr, - function(x){return(read.delim(x,sep=",", header = T))}) + function(x){return(read.delim(x,sep=",", header = T))}) } @@ -421,13 +428,13 @@ processRawData <- function(input, names(tcr.list) <- sapply(names(tcr.list), function(x) gsub("\\.(\\w+)?","", x)) - + if (setequal(names(obj.list),names(tcr.list))==F){ stop("Names from sequencing files do not match TCR metadata files") } } - + ### Process Metadata table #### @@ -437,7 +444,7 @@ processRawData <- function(input, meta.table=read.delim(file = sample.metadata.table, header = T,sep = '\t')%>% - suppressWarnings() + suppressWarnings() } else { meta.table=sample.metadata.table @@ -510,50 +517,7 @@ processRawData <- function(input, } sample.names=names(so.orig.nf) - - ### Add TCR Metadata #### - if (length(input.tcr)>0) { - so.orig.nf=lapply(sample.names,FUN = .addTCR) - names(so.orig.nf)=sample.names - } - - - - ### Rename Samples #### - if(is.null(sample.metadata.table)==F&is.null(rename.col)==F){ - if(sample.name.column!=rename.col){ - if(identical(sort(names(so.orig.nf)), - sort(meta.table[[sample.name.column]]))){ - for (i in names(so.orig.nf)) { - - nname=meta.table[meta.table[,sample.name.column]%in%i,] - ## add original name to metadata table - so.orig.nf[[i]]@meta.data[,sample.name.column]= - nname[,sample.name.column] - ## change orig.ident col to new name - so.orig.nf[[i]]@meta.data$orig.ident=nname[,rename.col] - - names(so.orig.nf)[names(so.orig.nf)%in%i]=nname[,rename.col] - } - ## remove original sample names from meta.data table - meta.table=meta.table[,!colnames(meta.table)%in% - sample.name.column,drop=F] - sample.name.column=rename.col - sample.names=names(so.orig.nf) - cat("Renamed Samples:\n",paste(names(so.orig.nf),collapse = '\n'),'\n') - - - }else { - stop("ERROR: Your metadata sample names do not mach the sample - names of your samples") - } - }else{ - cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n'),"\n") - } - }else{ - cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n'),"\n") - } - + cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n')) @@ -588,7 +552,60 @@ processRawData <- function(input, } else { print("No Metadata table was supplied")} + ### Add TCR Metadata #### + if (length(input.tcr)>0) { + print("Processing TCRseq metadata tables") + + so.orig.nf=lapply(sample.names,FUN = .addTCR) + names(so.orig.nf)=sample.names + } + + + + + ### Rename Samples #### + if(is.null(sample.metadata.table)==F&is.null(rename.col)==F){ + if(sample.name.column!=rename.col){ + if(identical(sort(names(so.orig.nf)), + sort(meta.table[[sample.name.column]]))){ + for (i in names(so.orig.nf)) { + + nname=meta.table[meta.table[,sample.name.column]%in%i,] + ## add original name to metadata table + so.orig.nf[[i]]@meta.data[,sample.name.column]= + nname[,sample.name.column] + + ## Move original sample name column to second position in so metadata + so.orig.nf[[i]]@meta.data=relocate(so.orig.nf[[i]]@meta.data, + {{sample.name.column}}, + .after = orig.ident) + ## change orig.ident col to new name + so.orig.nf[[i]]@meta.data$orig.ident=nname[,rename.col] + + names(so.orig.nf)[names(so.orig.nf)%in%i]=nname[,rename.col] + + + } + ## remove original sample names from meta.data table + meta.table=meta.table[,!colnames(meta.table)%in% + sample.name.column,drop=F] + sample.name.column=rename.col + sample.names=names(so.orig.nf) + cat("Renamed Samples:\n",paste(names(so.orig.nf),collapse = '\n'),'\n') + + + }else { + stop("ERROR: Your metadata sample names do not mach the sample + names of your samples") + } + }else{ + cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n'),"\n") + } + }else{ + cat("Sample Names:\n",paste(names(so.orig.nf),collapse = '\n'),"\n") + } + ### Remove Sample files #### subsetRegex <- file.filter.regex @@ -636,7 +653,7 @@ processRawData <- function(input, ### Post Filter Summary - Scatter scatter.allsamples=lapply(v, - function(y){.plotScatterPost2(table.meta,'nCount_RNA',y)}) + function(y){.plotScatterPost2(table.meta,'nCount_RNA',y)}) names(scatter.allsamples)=v scatter.allsamples.grob=ggarrange(plotlist=scatter.allsamples, @@ -667,8 +684,8 @@ processRawData <- function(input, legend = 'right') violin.allsamples.grob=annotate_figure(violin.allsamples.grob, - top = text_grob("", - face = "bold", size = 14)) + top = text_grob("", + face = "bold", size = 14)) ### Post Filter Summary - combined Scatter + Histogram From e03cf0bff7fae01e84c57ae7d779e28378935808 Mon Sep 17 00:00:00 2001 From: Philip Homan Date: Sun, 10 Sep 2023 08:02:57 -0400 Subject: [PATCH 4/4] Minor syntax change --- R/Process_Raw_Data.R | 22 +++++++++++++++++++++- 1 file changed, 21 insertions(+), 1 deletion(-) diff --git a/R/Process_Raw_Data.R b/R/Process_Raw_Data.R index 7d2b617..d2b0e4d 100755 --- a/R/Process_Raw_Data.R +++ b/R/Process_Raw_Data.R @@ -413,6 +413,7 @@ processRawData <- function(input, } + ## Clean up sample names names(obj.list) <- lapply(input.dat, basename) names(obj.list) <- sapply(names(obj.list), @@ -436,7 +437,6 @@ processRawData <- function(input, - ### Process Metadata table #### if(is.null(sample.metadata.table)==F){ meta_class <- getClass(class(sample.metadata.table)) @@ -449,8 +449,28 @@ processRawData <- function(input, } else { meta.table=sample.metadata.table } + if (length(setdiff(meta.table[,sample.name.column],names(obj.list)))>0) { + stop(paste0(" + Names in the sample metadata column: '",sample.name.column, + "' do not match sample names taken from .h5 files. + Possible reasons could be misspelled names, or spaces in table. + Check sample names: + ", + paste( + paste0("'",setdiff(meta.table[,sample.name.column],names(obj.list)),"'"), + sep="", + collapse = "\n" + ), + " + in Metadata table" + )) + } } else { print("No Metadata provided")} + + + + ### Create Seurat Object #### so.orig.nf <- list() for(i in seq_along(names(obj.list))){