Commit be3a4ada authored by flothoni's avatar flothoni Committed by Mathieu Giraud

IKZF1: last rename of germline sequences

Name correction: Rename 'IKZF1 intron-8' as 'IKZF1-3'UTR'
Update tests should-get
parent a52960aa
Pipeline #28186 passed with stages
in 30 minutes and 51 seconds
!LAUNCH: $VIDJIL_DIR/$EXEC $VIDJIL_DEFAULT_OPTIONS -g $VIDJIL_DIR/germline/homo-sapiens-isoforms.g -r 1 -e 0.1 $VIDJIL_DATA/ikaros_debre.fa
$ All sequences have been seen as different IKZF1 recombinations
$ All sequences have been seen as unique clone
1: found 22 windows in 22 reads
1: IKZF1 .* -> .* 22
$ All sequences have been seen as different IKZF1 recombinations
1: IKZF1 .* 22
### control sequence given by Debré ###
# del4-7__jonction_intron3_intron7
......@@ -15,14 +15,14 @@ $ Find the correct assignation for the sequence IKZF1-INTRON-3//IKZF1-INTRON-7
$ Find the correct assignation for the sequence IKZF1-INTRON-1-var//IKZF1-INTRON-7
1: IKZF1-INTRON-1-var 26/CC/14 IKZF1-INTRON-7
# del4-8__jonction_intron3_3UTR (could also be IKZF1-INTRON-3 1/GG/5 3'UTR_breakpoint1).
$ Find the correct assignation for the sequence IKZF1-INTRON-3//IKZF1-INTRON-8
1: IKZF1-INTRON-3 1//3 IKZF1-INTRON-8
# del4-8__jonction_intron3_3UTR (could also be IKZF1-INTRON-3 1/GG/5 IKZF1-3'UTR-breakpoint1).
$ Find the correct assignation for the sequence IKZF1-INTRON-3//IKZF1-3'UTR-breakpoint1
1: IKZF1-INTRON-3 1//3 IKZF1-3'UTR-breakpoint1
# del2-8__jonction_intron1_3UTR
$ Find the correct assignation for the sequence IKZF1-INTRON-1//IKZF1-INTRON-8
1: IKZF1-INTRON-1 18/TTCTAA/9 IKZF1-INTRON-8
$ Find the correct assignation for the sequence IKZF1-INTRON-1//IKZF1-3'UTR-breakpoint1
1: IKZF1-INTRON-1 18/TTCTAA/9 IKZF1-3'UTR-breakpoint1
### cas patient 19498 ###
......
>IKZF1-INTRON-7
tggaaacatcaagtctagtgtaactgtttcttcttcaaggtgatttgcattttattccTGAATGCCTGAGGGTTCTTT
>IKZF1-3'UTR
>IKZF1-3'UTR-breakpoint1
caaggtgtgggctgacatgctggctctcttccctgtatgccgagacatgcttgggatctcctagctccacactctgtctctcatgagtctgagccctttgggTTTCTGTGACTTCCAGTCCCC
>IKZF1-3'UTR-breakpoint2
cctgcagcacagtgtgtttctttctttccccacatcaagggtctacgtggaatagtgcttttccacagagtagctactagccacacatggctatttcaatttacattataatgaaatagaattgaaacttcagcccttcagttgtactagccatattccaggtgttctatcagcagatgtgactgtacccaccatattggacagcacaaatgtggaagcagacgtttccattgttgtagaaggctctgtcgggaagtgctgatgacatgccagtacctgccttgctccctggagctccccaaggtctagcacagtgcctggcacaaggtgaggggggtgcccagaaaagattcaattccctctccaagtaaaccattcattcccagcttccccaaagaagtcttccctggggtactaaatcctgaaggctgccttcagtattcgaagcatgcagcaactttcacttcttctttttcgacctggcccttcactctgcctgagagggaaatgtcacttgcctgaggacatgtgctttttctcaagcaggcacactggtccctttcaaggtgtgggctgacatgctggctctcttccctgtatgccgagacatgcttgggatctcctagctccacactctgtctctcatgagtctgagccctttgggTTTCTGTGACTTCCAGTCCCC
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