test for IGK, IGK+, Intron/KDE added

algo/tests/segment_lec.should_get

-!LAUNCH: ../../vidjil -G ../../germline/TRG -c segment ../../data/segment_lec.fa | grep '^>'
-
-$ Representative first junction Lec
-1:>Rep#01.*VJ 0 86 89 118 TRGV5.01 5/CC/0 TRGJ1.02
-
-$ Second junction lec
-#                              17   22
-#                               |    |
-# Junc#05:   0 TACTACTGTGCTGCGTGGAGACCCACTGGTTGGTTCAAGA
-#              ||||||||||||||||||    ||||||||||||||||||
-# V10*02 : 285 TACTACTGTGCTGCGTGGGATTA
-# JP1*01 :   0                    ATACCACTGGTTGGTTCAAGATATTTGCTGAAGGGACTAAGCTCATAGTAACTTCACCTG
-1:>Junc#05.*VJ 0 17 22 39 TRGV10.02 5/AGAC/3 TRGJP1.01
-
-$ Representative second junction Lec
-1:>Rep#05.*VJ 0 59 64 114 TRGV10.02 5/AGAC/3 TRGJP1.01
-
-$ Representative first junction Lec, revcomp
-1:>Rep_rc#01 - VJ 0 86 89 118 TRGV5.01 5/CC/0 TRGJ1.02
-
-$ Second junction lec, revcomp
-1:>Junc_rc#05 - VJ 0 17 22 39 TRGV10.02 5/AGAC/3 TRGJP1.01
-
-$ Representative second junction Lec, revcomp
-1:>Rep_rc#05 - VJ 0 59 64 114 TRGV10.02 5/AGAC/3 TRGJP1.01

algo/tests/should-vdj-tests/0000-lil-lec-TRG.should-vdj.fa

+>TRGV5*01 5/CC/0 TRGJ1*02  [TRG]
+# Representative first junction Lec Rep01
+CTCATACACCCAGGAGGTGGAGCTGGATATTGATACTACGAAATCTAATTGAAAATGATTCTGGGGTCTATTACTGTGCCACCTGGGCCTTATTATAAGAAACTCTTTGGCAGTGGAAC
+
+# Representative second junction Lec Rep05
+>TRGV10*02 5/AGAC/3 TRGJP1*01  [TRG] 
+ATCCTTACCATCAAGTCCGTAGAGAAAGAAGACATGGCCGTTTACTACTGTGCTGCGTGGAGACCCACTGGTTGGTTCAAGATATTTGCTGAAGGGACTAAGCTCATAGTAACTT
+

algo/tests/should-vdj-tests/0894-lil-IGK+.should-vdj.fa

+>Intron -5/CGCCA/-4 KDE  [IGK+]
+CGTGGCACCGCGAGCTGTAGACAGAGCCGCGGTCTTTCTCGATTGAGTGGCTTTGGTGGCCATGCCACCGCGCTCTTGGGGCAGCCGCCTTGCCGCTAGTGGCCGTGGCCACCCTGTGTCTGCCCGATTAATGCTGCCGTAGCCAGCTTTCCCGCCACCCTAGTGGCAGCCCAGGGCGACTCCTCATGAGTCTGCAGCTGCATTTTTGCCATATCCACTATTTGGAGTCTGACCTCCCTAGGAAGCCTCCCTGCTCCCTAGGACAACCTGCTCTGACCTCTGAGG
\ No newline at end of file

algo/tests/should-vdj-tests/1043-IGK.should-vdj.fa

+>IGKV1-5*03 -9/4/-1 IGKJ1*01  [IGK]
+CTCCTGCTACTCTGGCTCCCAGGTGCCAAATGTGACATCCAGATGACCCAGTCTCCTTCCACCCTGTCTGCGTCTGTAGGAGACAGAGTCACCATCACCTGCCGGGCCAGTCAGAGTATTAATAACAACTTGGCCTGGTATCAGGAGAAGCCAGGGAAAGCCCCTAAGGTCCTGATCTATAAGGCGTCTAGTTTAGAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGAATTCACTCTCACCATCAGCAGCCTGCAGCCTGATGATTTTGCAACCTATTACTGCCAACAATATAATAGACTTTGGACGTTCGGCCAAGGGACCAAGGTGGAAGTCAAACGAACTGTGGCTGCACCATCT
\ No newline at end of file