This function aligns V and J genes from the germline in each cluster with corresponding genes in each clonotype, saves the alignments for purpose of visualization, and calculates number of mutations for each clonotype.

repSomaticHypermutation(.data, .threads, .nofail)

Arguments

.data

The data to be processed: an output of repClonalFamily(); variants with one sample and list of samples are both supported.

.threads

Number of threads to use.

.nofail

Will return NA instead of stopping if Clustal W is not installed. Used to avoid raising errors in examples on computers where Clustal W is not installed.

Value

Dataframe or list of dataframes (if input is a list with multiple samples). The dataframe has all the columns from repClonalFamily() output dataframe, with Sequence column unnested: the resulting dataframe has one line per clonotype. Clone.ID column contains original IDs for clonotypes, and can be used as dataframe key. New columns are added: * Germline.Alignment.V: contains V gene alignment of current clonotype with the germline * Germline.Alignment.J: contains J gene alignment of current clonotype with the germline * Substitutions: contains number of substitutions in the alignment (summary for V and J) * Insertions: contains number of insertions in the clonotype relative to germline (summary for V and J) * Deletions: contains number of deletions in the clonotype relative to germline (summary for V and J) * Mutations: contains total number of mutations in the alignment (summary for V and J)

Examples


data(bcrdata)
bcr_data <- bcrdata$data

bcr_data %>%
  seqCluster(seqDist(bcr_data), .fixed_threshold = 3) %>%
  repGermline(.threads = 1) %>%
  repAlignLineage(.min_lineage_sequences = 2, .align_threads = 2, .nofail = TRUE) %>%
  repClonalFamily(.threads = 1, .nofail = TRUE) %>%
  repSomaticHypermutation(.threads = 1, .nofail = TRUE)
#> Warning: Genes or alleles IGHV4-55 from sample full_clones not found in the reference and will be dropped!
#> Probably, species argument is wrong (current value: HomoSapiens) or the data contains non-BCR genes.
#> $full_clones
#>                              Cluster
#> 1 IGHV4-61/IGHJ4_length_45_cluster_1
#> 2 IGHV4-61/IGHJ4_length_45_cluster_1
#> 3 IGHV4-61/IGHJ4_length_63_cluster_1
#> 4 IGHV4-61/IGHJ4_length_63_cluster_1
#> 5 IGHV5-51/IGHJ4_length_60_cluster_1
#> 6 IGHV5-51/IGHJ4_length_60_cluster_1
#> 7 IGHV5-51/IGHJ5_length_45_cluster_1
#> 8 IGHV5-51/IGHJ5_length_45_cluster_1
#>                                                                                                                                                                                                                                                                                                                                                                                   Germline.Input
#> 1                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 2                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 3 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 4 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 5       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 6       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 7                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 8                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#>                                                                                                                                                                                                                                                                                                                                                                                  Germline.Output
#> 1                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 2                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 3 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 4 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 5       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 6       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 7                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 8                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#>                                                                                                                                                                                                                                                                                                                                                                                  Common.Ancestor
#> 1                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCCATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACRSCACTCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 2                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCCATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACRSCACTCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 3 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACWAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 4 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACWAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 5       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTRAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAASCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 6       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTRAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAASCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 7                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGDTGGGGABCATCTATCCTCGTGACTCTGATACCAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATVTATTACTGTRCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 8                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGDTGGGGABCATCTATCCTCGTGACTCTGATACCAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATVTATTACTGTRCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#>   Trunk.Length
#> 1            7
#> 2            7
#> 3            8
#> 4            8
#> 5            6
#> 6            6
#> 7            6
#> 8            6
#>                                                                       Tree
#> 1  4, 4, 4, 1, 2, 3, 0.02747, 0.03297, 0.01923, 1, ID_643, ID_42, Germline
#> 2  4, 4, 4, 1, 2, 3, 0.02747, 0.03297, 0.01923, 1, ID_643, ID_42, Germline
#> 3  4, 4, 4, 1, 2, 3, 0.0144, 0.00131, 0.02094, 1, ID_123, ID_119, Germline
#> 4  4, 4, 4, 1, 2, 3, 0.0144, 0.00131, 0.02094, 1, ID_123, ID_119, Germline
#> 5 4, 4, 4, 1, 2, 3, 0.00798, 0.00266, 0.01596, 1, ID_792, ID_416, Germline
#> 6 4, 4, 4, 1, 2, 3, 0.00798, 0.00266, 0.01596, 1, ID_792, ID_416, Germline
#> 7 4, 4, 4, 1, 2, 3, 0.03186, 0.04017, 0.01385, 1, ID_987, ID_283, Germline
#> 8 4, 4, 4, 1, 2, 3, 0.03186, 0.04017, 0.01385, 1, ID_987, ID_283, Germline
#>                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             TreeStats
#> 1                                                                         CommonAncestor_1, ID_643, ID_42, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 301, 26, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 7, 9, 11, 0, 7, 5, 8, 0, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCCATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACRSCACTCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGATATATTCATTACAGTGGGAACTCCTTCTACAACCCCTCCCTCAAAAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAGGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACGCCACTCCCTTTGACTACTGGGGCCCGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATGTCCATCACAGTGGGAGCACCAATTACAATCCCTCCCTCAAGCGTCGAGTCACCATGTCAGTAGACACGGCCAGGAAGCAGTTGTCCCTGAAATTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACAGCACTCCCTTTGACTACTGGGGCCAGGGAGCCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 2                                                                         CommonAncestor_1, ID_643, ID_42, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 301, 26, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 7, 9, 11, 0, 7, 5, 8, 0, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCCATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACRSCACTCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGATATATTCATTACAGTGGGAACTCCTTCTACAACCCCTCCCTCAAAAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAGGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACGCCACTCCCTTTGACTACTGGGGCCCGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATGTCCATCACAGTGGGAGCACCAATTACAATCCCTCCCTCAAGCGTCGAGTCACCATGTCAGTAGACACGGCCAGGAAGCAGTTGTCCCTGAAATTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACAGCACTCCCTTTGACTACTGGGGCCAGGGAGCCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 3 CommonAncestor_1, ID_123, ID_119, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 53, 290, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 8, 5, 0, 0, 7, 4, 0, 0, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACWAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGAATATCTATTACAGTGGGACTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCCTTAGACACGTCCAAGAACCAGTTCTCCCTGACCCTGAGGTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACAAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACTAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 4 CommonAncestor_1, ID_123, ID_119, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 53, 290, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 8, 5, 0, 0, 7, 4, 0, 0, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACWAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGAATATCTATTACAGTGGGACTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCCTTAGACACGTCCAAGAACCAGTTCTCCCTGACCCTGAGGTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACAAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACTAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 5                         CommonAncestor_1, ID_792, ID_416, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 777, 21, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 6, 2, 0, 0, 7, 1, 0, 0, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTRAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAASCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGAATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCAGCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTAAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAACCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTGAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAAGCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 6                         CommonAncestor_1, ID_792, ID_416, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 777, 21, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 6, 2, 0, 0, 7, 1, 0, 0, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTRAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAASCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGAATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCAGCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTAAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAACCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTGAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAAGCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 7                                                                                   CommonAncestor_1, ID_987, ID_283, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 57, 184, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 6, 12, 15, 0, 6, 6, 9, 0, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGDTGGGGABCATCTATCCTCGTGACTCTGATACCAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATVTATTACTGTRCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGTTGGGGAGCATCTACCCTCGTGACTCTGACACTAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCCTCAGTACCGCCTACTTGCAGTGGAACAGCCTGCAGGCCTCGGACACCGCCATCTACTACTGTGCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGAAAAGGCCTGGAGTGGGTGGGATCGATCTATCCTCGTGACTCTGATATCAGATACAATCCGTCCTTCCAAGGCCAAGTCACCATCTCAGCCGACAGGTCCACCACCACCGCCTACCTGCAGTGGAGCAGTCTGAAGGCCTCGGACACCGCCATATATTACTGTACGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAGCCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#> 8                                                                                   CommonAncestor_1, ID_987, ID_283, Germline, CommonAncestor, Clonotype, Clonotype, Germline, 1, 57, 184, 1, Germline, CommonAncestor_1, CommonAncestor_1, NA, 6, 12, 15, 0, 6, 6, 9, 0, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGDTGGGGABCATCTATCCTCGTGACTCTGATACCAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATVTATTACTGTRCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGTTGGGGAGCATCTACCCTCGTGACTCTGACACTAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCCTCAGTACCGCCTACTTGCAGTGGAACAGCCTGCAGGCCTCGGACACCGCCATCTACTACTGTGCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGAAAAGGCCTGGAGTGGGTGGGATCGATCTATCCTCGTGACTCTGATATCAGATACAATCCGTCCTTCCAAGGCCAAGTCACCATCTCAGCCGACAGGTCCACCACCACCGCCTACCTGCAGTGGAGCAGTCTGAAGGCCTCGGACACCGCCATATATTACTGTACGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAGCCCTGGTCACCGTCTCCTCAG, GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCAAGGAACCCTGGTCACCGTCTCCTCAG
#>                                                                                                                                                                                                                                                                                                                                                                                         Sequence
#> 1                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATGTCCATCACAGTGGGAGCACCAATTACAATCCCTCCCTCAAGCGTCGAGTCACCATGTCAGTAGACACGGCCAGGAAGCAGTTGTCCCTGAAATTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACAGCACTCCCTTTGACTACTGGGGCCAGGGAGCCCTGGTCACCGTCTCCTCAG
#> 2                   CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGATATATTCATTACAGTGGGAACTCCTTCTACAACCCCTCCCTCAAAAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAGGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTCTGTGCGAGAGGCGCCGGGGACTACGCCACTCCCTTTGACTACTGGGGCCCGGGAACCCTGGTCACCGTCTCCTCAG
#> 3 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACTAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 4 CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGAATATCTATTACAGTGGGACTACCAACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCCTTAGACACGTCCAAGAACCAGTTCTCCCTGACCCTGAGGTCTGTGACCGCTGCGGACACGGCCGTGTATTTTTGTGCGAGAGATCATCACAGTTTCTATGATACAAGTGGTTATTATCCCTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 5       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTGAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAAGCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 6       GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGAATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGACCAGGTCAGCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGTAAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAACCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 7                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGAAAAGGCCTGGAGTGGGTGGGATCGATCTATCCTCGTGACTCTGATATCAGATACAATCCGTCCTTCCAAGGCCAAGTCACCATCTCAGCCGACAGGTCCACCACCACCGCCTACCTGCAGTGGAGCAGTCTGAAGGCCTCGGACACCGCCATATATTACTGTACGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAGCCCTGGTCACCGTCTCCTCAG
#> 8                      GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGTTGGGGAGCATCTACCCTCGTGACTCTGACACTAGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCCTCAGTACCGCCTACTTGCAGTGGAACAGCCTGCAGGCCTCGGACACCGCCATCTACTACTGTGCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#>   Clone.ID Clones    V.allele J.allele                        CDR1.nt
#> 1       42     26 IGHV4-61*01 IGHJ4*01 ggtggctccgtcagcagtggtggttactac
#> 2      643    301 IGHV4-61*01 IGHJ4*01 ggtggctccgtcagcagtggtggttactac
#> 3      119    290 IGHV4-61*01 IGHJ4*01 ggtggctccgtcagcagtggtggttactac
#> 4      123     53 IGHV4-61*01 IGHJ4*01 ggtggctccgtcagcagtggtggttactac
#> 5      416     21 IGHV5-51*01 IGHJ4*01       ggatacagctttaccagctactgg
#> 6      792    777 IGHV5-51*01 IGHJ4*01       ggatacagctttaccagctactgg
#> 7      283    184 IGHV5-51*01 IGHJ5*01       ggatacagctttaccagctactgg
#> 8      987     57 IGHV5-51*01 IGHJ5*01       ggatacagctttaccagctactgg
#>                    CDR2.nt
#> 1    GTCCATCACAGTGGGAGCACC
#> 2    ATTCATTACAGTGGGAACTCC
#> 3    ATCTATTACAGTGGGAGTACC
#> 4    ATCTATTACAGTGGGACTACC
#> 5 ATCTATCCTGGTGACTCTGATACC
#> 6 ATCTATCCTGGTGACTCTGATACC
#> 7 ATCTATCCTCGTGACTCTGATATC
#> 8 ATCTACCCTCGTGACTCTGACACT
#>                                                           CDR3.nt
#> 1                   TGTGCGAGAGGCGCCGGGGACTACAGCACTCCCTTTGACTACTGG
#> 2                   TGTGCGAGAGGCGCCGGGGACTACGCCACTCCCTTTGACTACTGG
#> 3 TGTGCGAGAGATCATCACAGTTTCTATGATACTAGTGGTTATTATCCCTACTTTGACTACTGG
#> 4 TGTGCGAGAGATCATCACAGTTTCTATGATACAAGTGGTTATTATCCCTACTTTGACTACTGG
#> 5    TGTGTGAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAAGCTTTGACTACTGG
#> 6    TGTGTAAGACACTCTGGTAAGATAGAATCATCTGTGGGCCCCAGAACCTTTGACTACTGG
#> 7                   TGTACGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGG
#> 8                   TGTGCGAGACAACACCCTTTAGATAGTCGTGTCTGGTACACTTGG
#>                                                                        FR1.nt
#> 1 caggtgcagctgcaggagtcgggcccaggactggtgaagccttcggagaccctgtccctcacctgcactgtctct
#> 2 caggtgcagctgcaggagtcgggcccaggactggtgaagccttcggagaccctgtccctcacctgcactgtctct
#> 3 caggtgcagctgcaggagtcgggcccaggactggtgaagccttcggagaccctgtccctcacctgcactgtctct
#> 4 caggtgcagctgcaggagtcgggcccaggactggtgaagccttcggagaccctgtccctcacctgcactgtctct
#> 5 gaggtgcagctggtgcagtctggagcagaggtgaaaaagcccggggagtctctgaagatctcctgtaagggttct
#> 6 gaggtgcagctggtgcagtctggagcagaggtgaaaaagcccggggagtctctgaagatctcctgtaagggttct
#> 7 gaggtgcagctggtgcagtctggagcagaggtgaaaaagcccggggagtctctgaagatctcctgtaagggttct
#> 8 gaggtgcagctggtgcagtctggagcagaggtgaaaaagcccggggagtctctgaagatctcctgtaagggttct
#>                                                FR2.nt
#> 1 tggagctggatccggcagCCCCCAGGGAAGGGACTGGAGTGGATTGGGTAT
#> 2 tggagctggatccggcagCCCCCAGGGAAGGGACTGGAGTGGATTGGATAT
#> 3 tggagctggatccggcagcccccagggaagggactgGAGTGGATTGGGTAT
#> 4 tggagctggatccggcagcccccagggaagggactgGAGTGGATTGGGAAT
#> 5 atcggctgggtgcgccagatgcccgggaaaggcctgGAGTGGATGGGGATC
#> 6 atcggctgggtgcgccagatgcccgggaaaggcctgGAGTGGATGGGAATC
#> 7 atcggctgggtgcgccagatgCCCGGAAAAGGCCTGGAGTGGGTGGGATCG
#> 8 atcggctgggtgcgccagatgCCCGGGAAAGGCCTGGAGTGGTTGGGGAGC
#>                                                                                                            FR3.nt
#> 1 AATTACAATCCCTCCCTCAAGCGTCGAGTCACCATGTCAGTAGACACGGCCAGGAAGCAGTTGTCCCTGAAATTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTC
#> 2 TTCTACAACCCCTCCCTCAAAAGTCGAGTCACCATGTCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAGGTTGACCTCTGTGACCGCTGCGGACACGGCCGTGTATTTC
#> 3 AACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCATTAGACACGTCCAAGAACCAGTTCTCCCTGAACCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTTT
#> 4 AACTACAACCCCTCCCTCAAGAGTCGAGTCAGCATATCCTTAGACACGTCCAAGAACCAGTTCTCCCTGACCCTGAGGTCTGTGACCGCTGCGGACACGGCCGTGTATTTT
#> 5 AGATACAGCCCGTCCTTCCAAGACCAGGTCACCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTAC
#> 6 AGATACAGCCCGTCCTTCCAAGACCAGGTCAGCATGTCAGTCGGCAAGTCCATCGGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTAC
#> 7 AGATACAATCCGTCCTTCCAAGGCCAAGTCACCATCTCAGCCGACAGGTCCACCACCACCGCCTACCTGCAGTGGAGCAGTCTGAAGGCCTCGGACACCGCCATATATTAC
#> 8 AGATACAGTCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCCTCAGTACCGCCTACTTGCAGTGGAACAGCCTGCAGGCCTCGGACACCGCCATCTACTAC
#>                            FR4.nt
#> 1 GGCCAGGGAGCCCTGGTCACCGTCTCCTCAG
#> 2 GGCCCGGGAACCCTGGTCACCGTCTCCTCAG
#> 3 GGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 4 GGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 5 GGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 6 GGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#> 7 GGCCAGGGAGCCCTGGTCACCGTCTCCTCAG
#> 8 GGCCAGGGAACCCTGGTCACCGTCTCCTCAG
#>                                                                                               V.aa
#> 1 QVQLQESGPGLVKPSETLSLTCTVSGGSVSSGGYYWSWIRQPPGKGLEWIGYVHHSGSTNYNPSLKRRVTMSVDTARKQLSLKLTSVTAADTAVYF
#> 2 QVQLQESGPGLVKPSETLSLTCTVSGGSVSSGGYYWSWIRQPPGKGLEWIGYIHYSGNSFYNPSLKSRVTMSVDTSKNQFSLRLTSVTAADTAVYF
#> 3 QVQLQESGPGLVKPSETLSLTCTVSGGSVSSGGYYWSWIRQPPGKGLEWIGYIYYSGSTNYNPSLKSRVSISLDTSKNQFSLNLSSVTAADTAVYF
#> 4 QVQLQESGPGLVKPSETLSLTCTVSGGSVSSGGYYWSWIRQPPGKGLEWIGNIYYSGTTNYNPSLKSRVSISLDTSKNQFSLTLRSVTAADTAVYF
#> 5  EVQLVQSGAEVKKPGESLKISCKGSGYSFTSYWIGWVRQMPGKGLEWMGIIYPGDSDTRYSPSFQDQVTMSVGKSIGTAYLQWSSLKASDTAMYY
#> 6  EVQLVQSGAEVKKPGESLKISCKGSGYSFTSYWIGWVRQMPGKGLEWMGIIYPGDSDTRYSPSFQDQVSMSVGKSIGTAYLQWSSLKASDTAMYY
#> 7  EVQLVQSGAEVKKPGESLKISCKGSGYSFTSYWIGWVRQMPGKGLEWVGSIYPRDSDIRYNPSFQGQVTISADRSTTTAYLQWSSLKASDTAIYY
#> 8  EVQLVQSGAEVKKPGESLKISCKGSGYSFTSYWIGWVRQMPGKGLEWLGSIYPRDSDTRYSPSFQGQVTISADKSLSTAYLQWNSLQASDTAIYY
#>           J.aa
#> 1 GQGALV~SPSPQ
#> 2 GPGTLV~SPSPQ
#> 3 GQGTLV~SPSPQ
#> 4 GQGTLV~SPSPQ
#> 5 GQGTLV~SPSPQ
#> 6 GQGTLV~SPSPQ
#> 7 GQGALV~SPSPQ
#> 8 GQGTLV~SPSPQ
#>                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Germline.Alignment.V
#> 1 c, c, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, c, c, a, a, g, g, g, g, a, a, g, g, t, t, c, c, g, g, g, g, g, g, c, c, c, c, c, c, a, a, g, g, g, g, a, a, c, c, t, t, g, g, g, g, t, t, g, g, a, a, a, a, g, g, c, c, c, c, t, t, t, t, c, c, g, g, g, g, a, a, g, g, a, a, c, c, c, c, c, c, t, t, g, g, t, t, c, c, c, c, c, c, t, t, c, c, a, a, c, c, c, c, t, t, g, g, c, c, a, a, c, c, t, t, g, g, t, t, c, c, t, t, c, c, t, t, g, g, g, g, t, t, g, g, g, g, c, c, t, t, c, c, c, c, g, g, t, t, c, c, a, a, g, g, c, c, a, a, g, g, t, t, g, g, g, g, t, t, a, g, g, g, t, t, t, t, a, a, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, g, g, c, c, t, t, g, g, g, g, a, a, t, t, c, c, c, c, g, g, g, g, c, c, a, a, g, g, c, c, c, c, c, c, c, c, c, c, a, a, g, g, g, g, g, g, a, a, a, a, g, g, g, g, g, g, a, a, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, a, t, t, t, t, g, g, g, g, g, g, t, t, a, a, t, t, a, g, t, t, c, c, t, c, a, a, t, t, t, c, a, a, c, c, a, a, g, g, t, t, g, g, g, g, g, g, a, a, g, g, c, c, a, a, c, c, c, c, a, a, a, a, c, t, t, t, a, a, c, c, a, a, a, a, c, t, c, c, c, c, c, c, t, t, c, c, c, c, c, c, t, t, c, c, a, a, a, a, g, g, a, c, g, g, t, t, c, c, g, g, a, a, g, g, t, t, c, c, a, a, c, c, c, c, a, a, t, t, a, g, t, t, c, c, a, a, g, g, t, t, a, a, g, g, a, a, c, c, a, a, c, c, g, g, t, g, c, c, c, c, a, a, a, g, g, g, a, a, a, a, c, g, c, c, a, a, g, g, t, t, t, t, c, g, t, t, c, c, c, c, c, c, t, t, g, g, a, a, a, a, g, a, c, t, t, t, g, g, a, a, g, c, c, c, t, t, c, c, t, t, g, g, t, t, g, g, a, a, c, c, c, c, g, g, c, c, t, t, g, g, c, c, g, g, g, g, a, a, c, c, a, a, c, c, g, g, g, g, c, c, c, c, g, g, t, t, g, g, t, t, a, a, t, t, t, t, a, t, c, c
#> 2 c, c, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, c, c, a, a, g, g, g, g, a, a, g, g, t, t, c, c, g, g, g, g, g, g, c, c, c, c, c, c, a, a, g, g, g, g, a, a, c, c, t, t, g, g, g, g, t, t, g, g, a, a, a, a, g, g, c, c, c, c, t, t, t, t, c, c, g, g, g, g, a, a, g, g, a, a, c, c, c, c, c, c, t, t, g, g, t, t, c, c, c, c, c, c, t, t, c, c, a, a, c, c, c, c, t, t, g, g, c, c, a, a, c, c, t, t, g, g, t, t, c, c, t, t, c, c, t, t, g, g, g, g, t, t, g, g, g, g, c, c, t, t, c, c, c, c, g, g, t, t, c, c, a, a, g, g, c, c, a, a, g, g, t, t, g, g, g, g, t, t, a, g, g, g, t, t, t, t, a, a, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, g, g, c, c, t, t, g, g, g, g, a, a, t, t, c, c, c, c, g, g, g, g, c, c, a, a, g, g, c, c, c, c, c, c, c, c, c, c, a, a, g, g, g, g, g, g, a, a, a, a, g, g, g, g, g, g, a, a, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, a, t, t, t, t, g, g, g, g, g, a, t, t, a, a, t, t, a, a, t, t, c, t, t, c, a, a, t, t, t, t, a, a, c, c, a, a, g, g, t, t, g, g, g, g, g, g, a, a, g, a, c, c, a, t, c, c, c, c, a, t, a, t, c, c, t, t, a, a, c, c, a, a, a, a, c, c, c, c, c, c, c, c, t, t, c, c, c, c, c, c, t, t, c, c, a, a, a, a, g, a, a, a, g, g, t, t, c, c, g, g, a, a, g, g, t, t, c, c, a, a, c, c, c, c, a, a, t, t, a, g, t, t, c, c, a, a, g, g, t, t, a, a, g, g, a, a, c, c, a, a, c, c, g, g, t, t, c, c, c, c, a, a, a, a, g, g, a, a, a, a, c, c, c, c, a, a, g, g, t, t, t, t, c, c, t, t, c, c, c, c, c, c, t, t, g, g, a, a, a, g, g, g, c, t, t, t, g, g, a, a, g, c, c, c, t, t, c, c, t, t, g, g, t, t, g, g, a, a, c, c, c, c, g, g, c, c, t, t, g, g, c, c, g, g, g, g, a, a, c, c, a, a, c, c, g, g, g, g, c, c, c, c, g, g, t, t, g, g, t, t, a, a, t, t, t, t, a, t, c, c
#> 3 c, c, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, c, c, a, a, g, g, g, g, a, a, g, g, t, t, c, c, g, g, g, g, g, g, c, c, c, c, c, c, a, a, g, g, g, g, a, a, c, c, t, t, g, g, g, g, t, t, g, g, a, a, a, a, g, g, c, c, c, c, t, t, t, t, c, c, g, g, g, g, a, a, g, g, a, a, c, c, c, c, c, c, t, t, g, g, t, t, c, c, c, c, c, c, t, t, c, c, a, a, c, c, c, c, t, t, g, g, c, c, a, a, c, c, t, t, g, g, t, t, c, c, t, t, c, c, t, t, g, g, g, g, t, t, g, g, g, g, c, c, t, t, c, c, c, c, g, g, t, t, c, c, a, a, g, g, c, c, a, a, g, g, t, t, g, g, g, g, t, t, a, g, g, g, t, t, t, t, a, a, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, g, g, c, c, t, t, g, g, g, g, a, a, t, t, c, c, c, c, g, g, g, g, c, c, a, a, g, g, c, c, c, c, c, c, c, c, c, c, a, a, g, g, g, g, g, g, a, a, a, a, g, g, g, g, g, g, a, a, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, a, t, t, t, t, g, g, g, g, g, g, t, t, a, a, t, t, a, a, t, t, c, c, t, t, a, a, t, t, t, t, a, a, c, c, a, a, g, g, t, t, g, g, g, g, g, g, a, a, g, g, c, t, a, a, c, c, c, c, a, a, a, a, c, c, t, t, a, a, c, c, a, a, a, a, c, c, c, c, c, c, c, c, t, t, c, c, c, c, c, c, t, t, c, c, a, a, a, a, g, g, a, a, g, g, t, t, c, c, g, g, a, a, g, g, t, t, c, c, a, a, c, g, c, c, a, a, t, t, a, a, t, t, c, c, a, a, g, t, t, t, a, a, g, g, a, a, c, c, a, a, c, c, g, g, t, t, c, c, c, c, a, a, a, a, g, g, a, a, a, a, c, c, c, c, a, a, g, g, t, t, t, t, c, c, t, t, c, c, c, c, c, c, t, t, g, g, a, a, a, a, g, c, c, c, t, t, g, g, a, a, g, g, c, c, t, t, c, c, t, t, g, g, t, t, g, g, a, a, c, c, c, c, g, g, c, c, t, t, g, g, c, c, g, g, g, g, a, a, c, c, a, a, c, c, g, g, g, g, c, c, c, c, g, g, t, t, g, g, t, t, a, a, t, t, t, t, a, t, c, t
#> 4 c, c, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, c, c, a, a, g, g, g, g, a, a, g, g, t, t, c, c, g, g, g, g, g, g, c, c, c, c, c, c, a, a, g, g, g, g, a, a, c, c, t, t, g, g, g, g, t, t, g, g, a, a, a, a, g, g, c, c, c, c, t, t, t, t, c, c, g, g, g, g, a, a, g, g, a, a, c, c, c, c, c, c, t, t, g, g, t, t, c, c, c, c, c, c, t, t, c, c, a, a, c, c, c, c, t, t, g, g, c, c, a, a, c, c, t, t, g, g, t, t, c, c, t, t, c, c, t, t, g, g, g, g, t, t, g, g, g, g, c, c, t, t, c, c, c, c, g, g, t, t, c, c, a, a, g, g, c, c, a, a, g, g, t, t, g, g, g, g, t, t, a, g, g, g, t, t, t, t, a, a, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, g, g, c, c, t, t, g, g, g, g, a, a, t, t, c, c, c, c, g, g, g, g, c, c, a, a, g, g, c, c, c, c, c, c, c, c, c, c, a, a, g, g, g, g, g, g, a, a, a, a, g, g, g, g, g, g, a, a, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, a, t, t, t, t, g, g, g, g, g, g, t, a, a, a, t, t, a, a, t, t, c, c, t, t, a, a, t, t, t, t, a, a, c, c, a, a, g, g, t, t, g, g, g, g, g, g, a, a, g, c, c, t, a, a, c, c, c, c, a, a, a, a, c, c, t, t, a, a, c, c, a, a, a, a, c, c, c, c, c, c, c, c, t, t, c, c, c, c, c, c, t, t, c, c, a, a, a, a, g, g, a, a, g, g, t, t, c, c, g, g, a, a, g, g, t, t, c, c, a, a, c, g, c, c, a, a, t, t, a, a, t, t, c, c, a, c, g, t, t, t, a, a, g, g, a, a, c, c, a, a, c, c, g, g, t, t, c, c, c, c, a, a, a, a, g, g, a, a, a, a, c, c, c, c, a, a, g, g, t, t, t, t, c, c, t, t, c, c, c, c, c, c, t, t, g, g, a, a, a, c, g, c, c, c, t, t, g, g, a, a, g, g, c, g, t, t, c, c, t, t, g, g, t, t, g, g, a, a, c, c, c, c, g, g, c, c, t, t, g, g, c, c, g, g, g, g, a, a, c, c, a, a, c, c, g, g, g, g, c, c, c, c, g, g, t, t, g, g, t, t, a, a, t, t, t, t, a, t, c, t
#> 5                   g, g, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, g, g, t, t, g, g, c, c, a, a, g, g, t, t, c, c, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, a, a, g, g, g, g, t, t, g, g, a, a, a, a, a, a, a, a, a, a, g, g, c, c, c, c, c, c, g, g, g, g, g, g, g, g, a, a, g, g, t, t, c, c, t, t, c, c, t, t, g, g, a, a, a, a, g, g, a, a, t, t, c, c, t, t, c, c, c, c, t, t, g, g, t, t, a, a, a, a, g, g, g, g, g, g, t, t, t, t, c, c, t, t, g, g, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, c, t, t, t, t, t, t, a, a, c, c, c, c, a, a, g, g, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, t, t, c, c, g, g, g, g, c, c, t, t, g, g, g, g, g, g, t, t, g, g, c, c, g, g, c, c, c, c, a, a, g, g, a, a, t, t, g, g, c, c, c, c, c, c, g, g, g, g, g, g, a, a, a, a, a, a, g, g, g, g, c, c, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, a, t, t, g, g, g, g, g, g, g, g, a, a, t, t, c, c, a, a, t, t, c, c, t, t, a, a, t, t, c, c, c, c, t, t, g, g, g, g, t, t, g, g, a, a, c, c, t, t, c, c, t, t, g, g, a, a, t, t, a, a, c, c, c, c, a, a, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, c, c, c, c, c, g, g, t, t, c, c, c, c, t, t, t, t, c, c, c, c, a, a, a, a, g, g, g, a, c, c, c, c, a, a, g, g, g, g, t, t, c, c, a, a, c, c, c, c, a, a, t, t, c, g, t, t, c, c, a, a, g, g, c, t, c, c, g, g, a, g, c, c, a, a, a, a, g, g, t, t, c, c, c, c, a, a, t, t, c, c, a, g, g, g, c, c, a, a, c, c, c, c, g, g, c, c, c, c, t, t, a, a, c, c, c, c, t, t, g, g, c, c, a, a, g, g, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, c, c, c, c, t, t, g, g, a, a, a, a, g, g, g, g, c, c, c, c, t, t, c, c, g, g, g, g, a, a, c, c, a, a, c, c, c, c, g, g, c, c, c, c, a, a, t, t, g, g, t, t, a, a, t, t, t, t, a, a, c, c
#> 6                   g, g, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, g, g, t, t, g, g, c, c, a, a, g, g, t, t, c, c, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, a, a, g, g, g, g, t, t, g, g, a, a, a, a, a, a, a, a, a, a, g, g, c, c, c, c, c, c, g, g, g, g, g, g, g, g, a, a, g, g, t, t, c, c, t, t, c, c, t, t, g, g, a, a, a, a, g, g, a, a, t, t, c, c, t, t, c, c, c, c, t, t, g, g, t, t, a, a, a, a, g, g, g, g, g, g, t, t, t, t, c, c, t, t, g, g, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, c, t, t, t, t, t, t, a, a, c, c, c, c, a, a, g, g, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, t, t, c, c, g, g, g, g, c, c, t, t, g, g, g, g, g, g, t, t, g, g, c, c, g, g, c, c, c, c, a, a, g, g, a, a, t, t, g, g, c, c, c, c, c, c, g, g, g, g, g, g, a, a, a, a, a, a, g, g, g, g, c, c, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, a, t, t, g, g, g, g, g, g, g, a, a, a, t, t, c, c, a, a, t, t, c, c, t, t, a, a, t, t, c, c, c, c, t, t, g, g, g, g, t, t, g, g, a, a, c, c, t, t, c, c, t, t, g, g, a, a, t, t, a, a, c, c, c, c, a, a, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, c, c, c, c, c, g, g, t, t, c, c, c, c, t, t, t, t, c, c, c, c, a, a, a, a, g, g, g, a, c, c, c, c, a, a, g, g, g, g, t, t, c, c, a, a, c, g, c, c, a, a, t, t, c, g, t, t, c, c, a, a, g, g, c, t, c, c, g, g, a, g, c, c, a, a, a, a, g, g, t, t, c, c, c, c, a, a, t, t, c, c, a, g, g, g, c, c, a, a, c, c, c, c, g, g, c, c, c, c, t, t, a, a, c, c, c, c, t, t, g, g, c, c, a, a, g, g, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, c, c, c, c, t, t, g, g, a, a, a, a, g, g, g, g, c, c, c, c, t, t, c, c, g, g, g, g, a, a, c, c, a, a, c, c, c, c, g, g, c, c, c, c, a, a, t, t, g, g, t, t, a, a, t, t, t, t, a, a, c, c
#> 7                   g, g, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, g, g, t, t, g, g, c, c, a, a, g, g, t, t, c, c, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, a, a, g, g, g, g, t, t, g, g, a, a, a, a, a, a, a, a, a, a, g, g, c, c, c, c, c, c, g, g, g, g, g, g, g, g, a, a, g, g, t, t, c, c, t, t, c, c, t, t, g, g, a, a, a, a, g, g, a, a, t, t, c, c, t, t, c, c, c, c, t, t, g, g, t, t, a, a, a, a, g, g, g, g, g, g, t, t, t, t, c, c, t, t, g, g, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, c, t, t, t, t, t, t, a, a, c, c, c, c, a, a, g, g, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, t, t, c, c, g, g, g, g, c, c, t, t, g, g, g, g, g, g, t, t, g, g, c, c, g, g, c, c, c, c, a, a, g, g, a, a, t, t, g, g, c, c, c, c, c, c, g, g, g, g, g, a, a, a, a, a, a, a, g, g, g, g, c, c, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, g, t, t, g, g, g, g, g, g, g, a, a, t, t, c, c, g, a, a, t, t, c, c, t, t, a, a, t, t, c, c, c, c, t, t, g, c, g, g, t, t, g, g, a, a, c, c, t, t, c, c, t, t, g, g, a, a, t, t, a, a, c, t, c, c, a, a, g, g, a, a, t, t, a, a, c, c, a, a, g, a, c, t, c, c, c, c, g, g, t, t, c, c, c, c, t, t, t, t, c, c, c, c, a, a, a, a, g, g, g, g, c, c, c, c, a, a, g, a, g, g, t, t, c, c, a, a, c, c, c, c, a, a, t, t, c, c, t, t, c, c, a, a, g, g, c, c, c, c, g, g, a, a, c, c, a, a, a, g, g, g, t, t, c, c, c, c, a, a, t, c, c, c, a, a, g, c, c, c, a, a, c, c, c, c, g, g, c, c, c, c, t, t, a, a, c, c, c, c, t, t, g, g, c, c, a, a, g, g, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, c, t, c, c, t, t, g, g, a, a, a, a, g, g, g, g, c, c, c, c, t, t, c, c, g, g, g, g, a, a, c, c, a, a, c, c, c, c, g, g, c, c, c, c, a, a, t, t, g, a, t, t, a, a, t, t, t, t, a, a, c, c
#> 8                   g, g, a, a, g, g, g, g, t, t, g, g, c, c, a, a, g, g, c, c, t, t, g, g, g, g, t, t, g, g, c, c, a, a, g, g, t, t, c, c, t, t, g, g, g, g, a, a, g, g, c, c, a, a, g, g, a, a, g, g, g, g, t, t, g, g, a, a, a, a, a, a, a, a, a, a, g, g, c, c, c, c, c, c, g, g, g, g, g, g, g, g, a, a, g, g, t, t, c, c, t, t, c, c, t, t, g, g, a, a, a, a, g, g, a, a, t, t, c, c, t, t, c, c, c, c, t, t, g, g, t, t, a, a, a, a, g, g, g, g, g, g, t, t, t, t, c, c, t, t, g, g, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, c, t, t, t, t, t, t, a, a, c, c, c, c, a, a, g, g, c, c, t, t, a, a, c, c, t, t, g, g, g, g, a, a, t, t, c, c, g, g, g, g, c, c, t, t, g, g, g, g, g, g, t, t, g, g, c, c, g, g, c, c, c, c, a, a, g, g, a, a, t, t, g, g, c, c, c, c, c, c, g, g, g, g, g, g, a, a, a, a, a, a, g, g, g, g, c, c, c, c, t, t, g, g, g, g, a, a, g, g, t, t, g, g, g, g, a, t, t, t, g, g, g, g, g, g, g, g, a, a, t, g, c, c, a, a, t, t, c, c, t, t, a, a, t, c, c, c, c, c, t, t, g, c, g, g, t, t, g, g, a, a, c, c, t, t, c, c, t, t, g, g, a, a, t, c, a, a, c, c, c, t, a, a, g, g, a, a, t, t, a, a, c, c, a, a, g, g, c, t, c, c, c, c, g, g, t, t, c, c, c, c, t, t, t, t, c, c, c, c, a, a, a, a, g, g, g, g, c, c, c, c, a, a, g, g, g, g, t, t, c, c, a, a, c, c, c, c, a, a, t, t, c, c, t, t, c, c, a, a, g, g, c, c, c, c, g, g, a, a, c, c, a, a, a, a, g, g, t, t, c, c, c, c, a, c, t, t, c, c, a, a, g, g, c, t, a, a, c, c, c, c, g, g, c, c, c, c, t, t, a, a, c, c, c, t, t, t, g, g, c, c, a, a, g, g, t, t, g, g, g, g, a, a, g, a, c, c, a, a, g, g, c, c, c, c, t, t, g, g, a, c, a, a, g, g, g, g, c, c, c, c, t, t, c, c, g, g, g, g, a, a, c, c, a, a, c, c, c, c, g, g, c, c, c, c, a, a, t, t, g, c, t, t, a, a, t, c, t, t, a, a, c, c
#>                                                                                                                                                                       Germline.Alignment.J
#> 1 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, g, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 2 g, g, g, g, c, c, c, c, a, c, a, g, g, g, g, g, a, a, a, a, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 3 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, a, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 4 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, a, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 5 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, a, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 6 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, a, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 7 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, g, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#> 8 g, g, g, g, c, c, c, c, a, a, a, g, g, g, g, g, a, a, a, a, c, c, c, c, c, c, t, t, g, g, g, g, t, t, c, c, a, a, c, c, c, c, g, g, t, t, c, c, t, t, c, c, c, c, t, t, c, c, a, a, g, g
#>   Substitutions Insertions Deletions Mutations
#> 1            18          0         0        18
#> 2            16          0         0        16
#> 3             8          0         0         8
#> 4            13          0         0        13
#> 5             6          0         0         6
#> 6             8          0         0         8
#> 7            18          0         0        18
#> 8            15          0         0        15
#>