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view test-data/maf/merlinlastz.maf @ 0:53c2be00bb6f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 0a86c88a95b0d1cc49d84544136de6556b95320f
author bgruening
date Wed, 05 Jun 2024 08:15:49 +0000
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##maf version=1 scoring=lastz.v1.04.22
# lastz.v1.04.22 --strand=both --ambiguous=iupac --traceback=160M --format=maf --action:target=multiple 
#
# hsp_threshold      = 3000
# gapped_threshold   = 3000
# x_drop             = 910
# y_drop             = 9400
# gap_open_penalty   = 400
# gap_extend_penalty = 30
#        A    C    G    T
#   A   91 -114  -31 -123
#   C -114  100 -125  -31
#   G  -31 -125  100 -114
#   T -123  -31 -114   91
a score=5703
s Merlin.Merlin 1320 60 + 172788 ATGTAAGCTCAGGAGCTCCACACGCAACAGGAACACAACCTGTGAACATTATCACAGTAT
s Merlin1.Merlin    0 60 +     60 ATGTAAGCTCAGGAGCTCCACACGCAACAGGAACACAACCTGTGAACATTATCACAGTAT

a score=5595
s Merlin.Merlin  4020 60 + 172788 ATGAATTTATCAGTCCAATACTTAAAATGAATACGAAGTAAATCTATGCCTAATACTAAT
s Merlin2.Merlin    0 60 +     60 ATGAATTTATCAGTCCAATACTTAAAATGAATACGAAGTAAATCTATGCCTAATACTAAT

a score=5667
s Merlin.Merlin  5220 60 + 172788 TAATCAACGTGTGATGCTTCAAGCCAAGCTTAGGAATAGAAATGGTTTTGCCATTGACTT
s Merlin3.Merlin    0 60 +     60 TAATCAACGTGTGATGCTTCAAGCCAAGCTTAGGAATAGAAATGGTTTTGCCATTGACTT

a score=5640
s Merlin.Merlin  7740 60 + 172788 AAAAGCTTATTGCTTAAGCCTACAGTTAAACTCGCTATTCCAGTTAAATGCGATAAATGT
s Merlin4.Merlin    0 60 +     60 AAAAGCTTATTGCTTAAGCCTACAGTTAAACTCGCTATTCCAGTTAAATGCGATAAATGT

a score=5649
s Merlin.Merlin  9720 60 + 172788 TTTTCTTTGCTAATTTAACACCAAGAGCTGCAATCCATTGGTTTCTTCGTTTATATCCTG
s Merlin5.Merlin    0 60 +     60 TTTTCTTTGCTAATTTAACACCAAGAGCTGCAATCCATTGGTTTCTTCGTTTATATCCTG

a score=5658
s Merlin.Merlin  10380 60 + 172788 ATACTGCATCCTTTTGATACCAATGCGGTTCAATTTGAGTGTTACCAGAGTATATCTTGA
s Merlin6.Merlin     0 60 +     60 ATACTGCATCCTTTTGATACCAATGCGGTTCAATTTGAGTGTTACCAGAGTATATCTTGA