From ea4c8935bd1a8879d2b8aaa8c132171b780240f5 Mon Sep 17 00:00:00 2001 From: Heng Li Date: Tue, 3 Jun 2025 20:22:14 -0400 Subject: [PATCH] added one more example This shows STAR doesn't try to match the GTR..YAG consensus. --- test/x3s-aln.txt | 5 +++++ test/x3s-qry.fa | 5 +++++ test/x3s-ref.fa | 10 ++++++++++ 3 files changed, 20 insertions(+) create mode 100644 test/x3s-aln.txt create mode 100644 test/x3s-qry.fa create mode 100644 test/x3s-ref.fa diff --git a/test/x3s-aln.txt b/test/x3s-aln.txt new file mode 100644 index 0000000..5b83ae8 --- /dev/null +++ b/test/x3s-aln.txt @@ -0,0 +1,5 @@ +mm2: TGTTATCCCTAGGGTAACTTGTTCCGTTGGTCAAGTTATTGGATCAATTGAGTATAGTAGTGCACTCAC......................................................................................................................................CACTTGGAGCCATTCATACAGGTCCCTATTTAAGGAACAAGTGATTATGCTACCTTTGCACGGTT + ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| +ref: TGTTATCCCTAGGGTAACTTGTTCCGTTGGTCAAGTTATTGGATCAATTGAGTATAGTAGTGCACTCACctGCTTCGCTTTGACTGGTGAAGTCTTAGCATGTACTGCTCGGAGGTTGGGTTCTGCTCCGAGGTCGCCCCAACCGAAATTTTTAATGCAGGTTTGGTAGTTTAGGACCTGTGGGTTTGTTAGGCTAACCTCacCACTTGGAGCCATTCATACAGGTCCCTATTTAAGGAACAAGTGATTATGCTACCTTTGCACGGTT + |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| +sta: TGTTATCCCTAGGGTAACTTGTTCCGTTGGTCAAGTTATTGGATCAATTGAGTATAGTAGTGCA......................................................................................................................................CTCACCACTTGGAGCCATTCATACAGGTCCCTATTTAAGGAACAAGTGATTATGCTACCTTTGCACGGTT diff --git a/test/x3s-qry.fa b/test/x3s-qry.fa new file mode 100644 index 0000000..dd54e97 --- /dev/null +++ b/test/x3s-qry.fa @@ -0,0 +1,5 @@ +>query +AACCGTGCAAAGGTAGCATAATCACTTGTTCCTTAAATAGGGACCTGTATGAATGGCTCC +AAGTG +GTGAGTGCA +CTACTATACTCAATTGATCCAATAACTTGACCAACGGAACAAGTTACCCTAGGGATAACA diff --git a/test/x3s-ref.fa b/test/x3s-ref.fa new file mode 100644 index 0000000..1f9c1cc --- /dev/null +++ b/test/x3s-ref.fa @@ -0,0 +1,10 @@ +>ref +TGATCCAACATCGAGGTCGTAAACCCTATTGTTGATATGGACTCTAGAATAGGATTGCGC +TGTTATCCCTAGGGTAACTTGTTCCGTTGGTCAAGTTATTGGATCAATTGAGTATAGTAG +TGCACTCAC +ctGCTTCGCTTTGACTGGTGAAGTCTTAGCATGTACTGCTCGGAGGTTGGGTTCTGCTCC +GAGGTCGCCCCAACCGAAATTTTTAATGCAGGTTTGGTAGTTTAGGACCTGTGGGTTTGT +TAGGCTAACCTCac +CACTTGGAGCCATTCATACAGGTCCCTATTTAAGGAACAAGTGATTATGCTACCTTTGCA +CGGTTAGGGTACCGCGGCCGTTAAACATGTGTCACTGGGCAGGCGGTGCCTCTAATACTG +GTGAT