Commit f56b3b91 authored by Mikaël Salson's avatar Mikaël Salson
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bug2249: We may have over-deleted Ds

See #2249
parent 6d9331c4
# 0169-lil-TRA+D.should-vdj.fa
>TRDV2*02 14/TCCCGGCCT/0 TRDD3*01 3/CCACGGC/4 TRAJ29*01 [TRA+D]
ATACCGAGAAAAGGACATCTATGGCCCTGGTTTCAAAGACAATTTCCAAGGTGACATTGATATTGCAAAGAACCTGGCTGTACTTAAGATACTTGCACCATCAGAGAGAGATGAAGGGTCTTACTATCCCGGCCTACTGGGGGATCCACGGCTTCAGGAAACACACCTCTTGTCTTTGGAAAGGGCACAAGACTTTCTGTGATTGCAAGTAAGTGTTTCTAGCCATCCTTGATTTTGATCAGCAATGGCTTCTTCCCTTGAATTATTTTTCAGTGTACCTAGAATGCTTTTGCC
# 0120-lil-TRA+D.should-vdj.fa
>TRDV2*02 6/CGGGGCCC/3 TRDD3*01 5//27 TRAJ29*01 [TRA+D]
ATACCGAGAAAAGGACATCTATGGCCCTGGTTTCAAAGACAATTTCCAAGGTGACATTGATATTGCAAAGAACCTGGCTGTACTTAAGATACTTGCACCATCAGAGAGAGATGAAGGGTCTTACTACTGTGCCTCGGGGCCCGGGGGTTGGAAAGGGCACAAGACTTTCTGTGATTGCAAGTAAGTGTTTCTAGCCATCCTTGATTTTGATCAGCAATGGCTTCTTCCCTTGAATTATTTTTCAGTGTACCTAGAATGCTTTTGCC
# 2944-lil-IGH.should-vdj.fa
>IGHV4-31*03 0/TCCT/1 IGHD3-22 3/AGCG/8 IGHJ4 [IGH]
AGGTGCAGTGGAGCAGTCGGGCCCAGGACTGGTGAAGCCTTCACAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGTCCATAGCAGTGGTGGTTACTACTGGAGCTGGATCCGCCAGCACCCAGGGAAGGGCCTGGAGTGGATTGGGTACATCTATTACAGTGGGAGCACCTATACAACCCGTCCCTCAAGAGTCGAGTTACCATATCAGTAGACACGTCTAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACTGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGATCCTTATTACTATGATAGTAGTGGTTATTACAGCGGACTACTGGGGCCAGGAACCTGGTCACCGTCGTCCTGCAGGTAAG
!LAUNCH: $VIDJIL_DIR/vidjil -E 1 -d -g $VIDJIL_DIR/germline -c segment bug2249.fa
$ Should not have a TRDD2 (length 9) with 8 deletions (first seq)
fe0:7 TRDD2*01 1
$ Should not have TRDD2 (length 9) with 12 deletions (second seq)
fe0:6 TRDD2*01 6
$ Should not have IGHD5-24 (length 20) with 29 deletions
fe0:17 IGHD5-24*01 12
$ Should not have VDDDJ
f0:VDDDJ
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