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diff test-data/out2.txt @ 1:806fb8363272 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/tracy commit 8eb3532d394f6a44d1edbcbe5ef05fd0474cdab3
author iuc
date Thu, 20 Mar 2025 07:18:23 +0000
parents f2e0d83186c7
children
line wrap: on
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--- a/test-data/out2.txt	Tue Oct 12 14:21:34 2021 +0000
+++ b/test-data/out2.txt	Thu Mar 20 07:18:23 2025 +0000
@@ -1,113 +1,116 @@
 >Alt
-TTTTTTTTTGAGCGGGTCGAACCGTCACGAAAAGAAAAGGGGAAGAACCATCAGCAGGAGTAATCCGTATTTTA
-ATTGGATCCACATTCATAGCAAACACCAAAAATCCATATTGGGACCACAATCCCAACAAAGACCACTGGACAGA
-AGCCAACAAGGTAGGAGTGGGAGCATTCGGGCCTGGGTTCACTCCCCCACACGGAGGCCTTTTGGGGTGGAGCC
-CTCAGGCTCAAGGCATGCTGACAACATTACCAGCAAATCCGCCTCCTGCCTCCACCAATCGACAGTCAGGAAGG
-CAGCCTACCCCAATCACTCCACCTTTGAGAGACACTCATCCTCAGGCCATGCAGTGGAATTCCACAACATTCCA
-CCAAGCTCTGCAGGATCCCAGAGTAAATCCTGCTGGTGGCTCCAGTTCCGGAACAGTGAACCCTGTTCCGACTA
-CTGCCTCACTCATCTCGTCAATCTTCTCGAGGATTGGGGACCCTGCACCGAACATGGAAAGCATCACATCAGGA
-TTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCGCAGAGTCT
-AGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCTCCCGTGTGTCTTGGCCAAAATTCTCAGTCCCAAA
-CCTCCAGTCACTCACCAACCTCTTGTCCTCCAATTTGTCCTGCCTATCGCTGGATGTGTCTGCGGCGGTTTATC
-ATATTCCTCTTCATCGTGCTGCTATGCCTCATCATCCTGTTGGGTTCGTCTGCACCATCAAAAGAATGTTGCCC
-CGGGTTGTGATTAAAAATTCCAAGGAGCAAGAAAGCCACCCACTACGGGAACCAGGGCCGGAAGCTGAACAAGT
-CATTTTTCAAAGGAAAATGAAAGATTTTCTTTCTTATTTGTGGGGGAAAAGCAAAAAAAGGAAAAAGGAAATTG
-GGGTTACAAACCCCACCCCCAAGGGATTTGGGAAATACCATATTTTAAAGGGGAAAGGGCCGCATAACCCATTA
-AAAATTGCATATTTTAAATTTTTTTTTTTTGAGAAAGAGGGGGGAC
->Ref X75657.1:2091-3110 forward
-AACTAATGACTCTAGCTACCTGGGTGGGTGTAAATTTGGAAGATCCAGCATCCAGGGACCTAGTAGTCAGTTAT
-GTCAATACTAATATGGGCCTAAAGTTCAGGCAATTATTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGA
-AACCGTCATAGAGTATTTGGTGTCTTTTGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCC
-CTATCTTATCAACACTTCCGGAGAATACTGTTGTTAGACGAAGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCG
-CCTCGCAGACGAAGATCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCCAGCTTCCCAATGTTAGTATTCCTT
-GGACTCATAAGGTGGGAAATTTTACGGGGCTTTACTCTTCTACTATACCTGTCTTTAATCCTAACTGGAAAACT
-CCATCTTTTCCTGATATTCATTTGCACCAGGACATTATTAACAAATGTGAACAATTTGTAGGTCCTCTAACTGT
-AAATGAAAAACGAAGATTAAACTTAGTCATGCCTGCTAGATTTTTTCCCATCTCTACGAAATATTTGCCCCTAG
-AGAAAGGTATAAAACCTTATTATCCAGATAATGTAGTTAATCATTACTTCCAAACCAGACACTATTTACATACC
-CTATGGAAGGCGGGCATCTTATATAAAAGAGAAACTACACGTAGCGCCTCATTTTGTGGGTCACCTTATTCTTG
-GGAACAAGAGCTACATCATGGGGCTTTCTTGGACGGTCCCTCTCGAATGGGGGAAGAATATTTCCACCACCAAT
-CCTCTGGGATTTTTTCCCGACCACCAGTTGGATCCAGCATTCAGAGCAAACACCAGAAATCCAGATTGGGACCA
-CAATCCCAACAAAGACCACTGGACAGAAGCCAACAAGGTAGGAGTGGGAGCATTCGGGCCTGGGTTCACTCCCC
-CACACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTCAAGGCATGCTAAAAACATTGCC
+TTCCTTGTTTTACGTTGTATGGTTGAACTATAGCTTTAGTTTCCATACAAACAGGCATTAATTTACGTGTTTCC
+TCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCCAAGAATTTCTTCTTTCTCATTAGAGACAAT
+GGATGGTAGTATGTAAAAAGCGCTCTTGCACTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTAT
+TACCCTGTCCAGGGTAGGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTA
+GTACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATCACCTACTATGTA
+AGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCATGGCAGAATCTGGATGAAGGTTGCCAT
+TAATGTCTATATAAAGTAACAAATTCTCTGTGAGAAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACA
+CAAGCCTTGACTTTCTTTTCTTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTC
+AACTTCCATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAAGCTAGAAA
+CAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCGAACAGTGTCTACACAAACTCTT
+AAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGACAATAAAGGTGCTAGTAAAGTATCATACTGATTGAA
+ATTTTCATATGCAGTTTTAAGAAGTTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAAT
+TTTTAGCAAGATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTAATTG
+TCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACCTCCTCCATGTTTAAGTAA
+ACATTAGCTGCATTAACAACTACTGTGGTTTCCCCTGTTAGCTTCTTCCACAATGTCTGCATTTTTAATGAAAA
+CATTTGTTAGGGGAG
+>Ref MT121216.1:2501-5000:720-1846 reversecomplement
+CCTTGTATTTACGTTGTATGGTTGAAACTATAGCTTTAGTTTCCATACAAACAGGCATTAATTTACGTGTTTCC
+TCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCCAAGAATTTCTTCTTTCTCATTAGAGACAAT
+GGATGGTAGTATGTAAAAAGCGCTCTTGCACTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTAT
+TACCCTGTCCAGGGTAGGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTA
+GTACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATCACCTACTATGTA
+AGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCATGGCAGAATCTGGATGAAGGTTGCCAT
+TAATGTCTATATAAAGTAACAAATTCTCTGTGAGAAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACA
+CAAGCCTTGACTTTCTTTTCTTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTC
+AACTTCCATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAAGCTAGAAA
+CAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCGAACAGTGTCTACACAAACTCTT
+AAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGACAATAAAGGTGCTAGTAAAGTATCATACTGATTGAA
+ATTTTCATATGCAGTTTTAAGAAGTTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAAT
+TTTTAGCAAGATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTAATTG
+TCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACCTCCTCCATGTTTAAGGTA
+AACATTAGCTGCATTAACAACTACTGTTGGTTTCACCTGTTTAGCTTCTTCCACAATGTCTGCATTTTTAATGA
+AAACATTGTTAGTGAGT
 
-Alignment score: -2113
+Alignment score: 1806
 #-------------------------------------------------------------------------
 
-Alt         1 --------TTTTTTTTTGAGCGGGTCGAACCGTCACGAAAAGAAAAGGGGAAGAACCATC
-                        | |   |    |||| |    ||    |   | | ||    || | |   
-Ref      2091 AACTAATGACTCTAGCTACCTGGGTGG----GTGTAAATTTGGA-AGATCCAGCATCCAG
+Alt         1 TTCCTTGT-TTTACGTTGTATGGTTGAA-CTATAGCTTTAGTTTCCATACAAACAGGCAT
+                |||||| ||||||||||||||||||| |||||||||||||||||||||||||||||||
+Ref      1846 --CCTTGTATTTACGTTGTATGGTTGAAACTATAGCTTTAGTTTCCATACAAACAGGCAT
 
-Alt        53 AGCAGGAGTAATCCGTATTTTAATTGGATCCACAT-TCATAGCAAACACCAAAAATCCAT
-               |    |||| || ||    ||  |  || |  || |      |||   ||   |   ||
-Ref      2146 GGACCTAGTAGTCAGT----TATGTCAATACTAATATGGGCCTAAAGTTCAGGCAATTAT
+Alt        59 TAATTTACGTGTTTCCTCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1788 TAATTTACGTGTTTCCTCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCC
 
-Alt       112 ATTGGGACCACAATCCCAACAAAGACCACTGGAC-AGAAGCCAACAAGGTAGGAGTGGGA
-                |||   ||| ||  |       ||   ||||  |||| ||  ||  | || | | || 
-Ref      2202 TGTGGTTTCAC-ATTTCTTGTCTCACTTTTGGAAGAGAAACCGTCATAG-AGTATTTGGT
+Alt       119 AAGAATTTCTTCTTTCTCATTAGAGACAATGGATGGTAGTATGTAAAAAGCGCTCTTGCA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1728 AAGAATTTCTTCTTTCTCATTAGAGACAATGGATGGTAGTATGTAAAAAGCGCTCTTGCA
 
-Alt       171 G-CATTCGG-GCCTGGGTTC--ACTCCCCCACACGGAGGCCTTTTGGGGTGGAGCCCTCA
-              | | || || |  ||| |||  ||||| |||       || | |        || || | 
-Ref      2260 GTCTTTTGGAGTGTGGATTCGCACTCCTCCA-------GCTTAT--------AGACCAC-
+Alt       179 CTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTATTACCCTGTCCAGGGTA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1668 CTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTATTACCCTGTCCAGGGTA
 
-Alt       227 GGCTCAAGGCATGCTGACAACATTACCAGCAAATCCGCCTCCTGCCTCCACCAATCGACA
-                  |||   ||||    | | ||| || ||  ||||     | |       |  ||| |
-Ref      2304 ----CAA---ATGCCCCTATC-TTATCAACACTTCCGGAGAATACTGTTGTTAGACGA-A
+Alt       239 GGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTAGT
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1608 GGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTAGT
 
-Alt       287 GTCAGGAAGGCAGCCTACCCCAATCACTCCACCTTTGAG-AGACACTCATCCTCAGGCCA
-              |  ||| |||   ||||    ||  |||||  |     | ||||    ||| |||  |  
-Ref      2355 G--AGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGATC-TCAATCGC
+Alt       299 ACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1548 ACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATC
 
-Alt       346 TGCAGTGGAATTCCACAACATTCCACCAAGCTCTGCAGGATCCCAGAGTAAATCCTGCTG
-               || || |     || || ||  ||      ||| |||  |||||  || | |  | || 
-Ref      2412 CGC-GTCG-----CAGAAGATCTCAA-----TCTCCAGCTTCCCAATGTTAGTATTCCTT
+Alt       359 ACCTACTATGTAAGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCAT
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1488 ACCTACTATGTAAGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCAT
 
-Alt       406 GTGGCTCCAGTTCCGGAACAGTGAACCCTG-TTCCGACTACTGCCTCACTCATCTCGTCA
-              | | |||       || | | |  ||   | ||    || || |   ||   |||  | |
-Ref      2461 G-GACTCATAAGGTGGGAAATTTTACGGGGCTTTACTCTTCTACTATACCTGTCT--TTA
+Alt       419 GGCAGAATCTGGATGAAGGTTGCCATTAATGTCTATATAAAGTAACAAATTCTCTGTGAG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1428 GGCAGAATCTGGATGAAGGTTGCCATTAATGTCTATATAAAGTAACAAATTCTCTGTGAG
 
-Alt       465 ATCTTCTCGAGGATTGGGGACCCTGCACCGAACATGGAAAGCATCACATCAGGATTCCTA
-              ||| |  |  | |      | | |   | ||   |     ||| ||   ||  |||   |
-Ref      2518 ATCCTAACTGGAAAACTCCATCTTTTCCTGATATTCATTTGCACCAGGACATTATT---A
+Alt       479 AAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACACAAGCCTTGACTTTCTTTTC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1368 AAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACACAAGCCTTGACTTTCTTTTC
 
-Alt       525 GGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCG
-                |    ||  |   ||  |   ||   | |   |||  |  |||| |   |  ||    
-Ref      2575 ACAAATGTGAACAATTTGTA---GGTCCTCTAACTGTAAATGAAAAACG--AAGATTAAA
+Alt       539 TTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTCAACTTC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1308 TTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTCAACTTC
 
-Alt       585 CAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCT--CCCGTGTGTC
-              |  ||||   |  | || | || || | ||   | |||| |      |  ||| |     
-Ref      2630 CTTAGTC---ATGCCTGCTAGATTTTT-TCCCATCTCTACGAAATATTTGCCCCTAGAGA
+Alt       599 CATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1248 CATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAA
 
-Alt       643 TTGGCCAAAATTCTCAGT--CCCAAACCTCCAGTCACTCACCAACCTCTTGTCCTCCAAT
-                ||   |||  || | |  ||  |   |  ||| | |||  |    |    |   || |
-Ref      2686 AAGGTATAAAACCTTATTATCCAGATAATGTAGTTAATCATTACTTCCAAACCAGACACT
+Alt       659 GCTAGAAACAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1188 GCTAGAAACAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCG
 
-Alt       701 TTGTCCTGCCTATCGCTGGATGTGTCTGCGGCGGTTTATCATATTCCT-CTTCATCGTGC
-               | | |   |   |  |||| | |   ||  |  | ||| | |      || ||    ||
-Ref      2746 ATTTACATAC--CCTATGGAAG-GCGGGCATCT-TATATAAAAGAGAAACTACACGTAGC
+Alt       719 AACAGTGTCTACACAAACTCTTAAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1128 AACAGTGTCTACACAAACTCTTAAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGA
 
-Alt       760 TGCT------ATGCCTCATCATCCTGTTGGGTTCGTCTGCACCATCAAAAGAATGTTGCC
-                ||       ||  ||| | |  | |||||  |    ||  |||||   |   | |  |
-Ref      2802 GCCTCATTTTGTGGGTCACCTTATTCTTGGGAACAAGAGCTACATCATGGG---GCTTTC
+Alt       779 CAATAAAGGTGCTAGTAAAGTATCATACTGATTGAAATTTTCATATGCAGTTTTAAGAAG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1068 CAATAAAGGTGCTAGTAAAGTATCATACTGATTGAAATTTTCATATGCAGTTTTAAGAAG
 
-Alt       814 CCGGGTTGTGATTAAAAATTCCAAGGAGCAAGAAAGCCACCCACTACGGGAACCAGGGCC
-                ||   ||   |      || || | |  |  ||     |||| ||   || |      
-Ref      2859 TTGGACGGTCCCTC-----TCGAATGGGGGAAGAATATTTCCACCACC--AATCCTCTGG
+Alt       839 TTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAATTTTTAGCAAG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1008 TTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAATTTTTAGCAAG
 
-Alt       874 GGAAGCTGAACAAGTCATTTTTCAAAGGAAAATGAAAGATTTTCTTTCTTATTTGTGGGG
-              |               ||||||    |   |     ||  ||   | |    ||  |   
-Ref      2912 G---------------ATTTTTTCCCG---ACCACCAG--TTGGATCCAGCATTCAG---
+Alt       899 ATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref       948 ATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTA
 
-Alt       934 GAAAAGCAAAAAAAGGAAAAAGGAAATTGGGGTTACAAACCCCACCCCCAAGGGATTTGG
-                  |||||| |   ||||    | ||||||   |||| ||| ||    |||     |||
-Ref      2949 ----AGCAAACACCAGAAA-TCCAGATTGGGACCACAATCCCAACA---AAGACCACTGG
+Alt       959 ATTGTCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref       888 ATTGTCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACC
 
-Alt       994 G--AAATACCATATTTTAAAGGGGAAAGGGCCGCATAACCCATTAAAAATTGCATATTTT
-                  ||  | | |   ||   | |  ||              || |      || |    
-Ref      3001 ACAGAAGCCAACAAGGTAGGAGTGGGAGCATTCGGGCCTGGGTTCACTCCCCCACACGGA
+Alt      1019 TCCTCCATGTTTAAG-TAAACATTAGCTGCATTAACAACTACTGT-GGTTTCCCCTGTT-
+              ||||||||||||||| ||||||||||||||||||||||||||||| |||||| |||||| 
+Ref       828 TCCTCCATGTTTAAGGTAAACATTAGCTGCATTAACAACTACTGTTGGTTTCACCTGTTT
 
-Alt      1052 AAATTTTTTTTTTTTGAGAAAGAGGGGGGAC-------------------
-                  ||||    |         |||    |                    
-Ref      3061 GGCCTTTTGGGGTGGAGCCCTCAGGCTCAAGGCATGCTAAAAACATTGCC
+Alt      1076 AGCTTCTTCCACAATGTCTGCATTTTTAATGAAAACATTTGTTAGGGGAG
+              ||||||||||||||||||||||||||||||||||||| ||||||| |   
+Ref       768 AGCTTCTTCCACAATGTCTGCATTTTTAATGAAAACA-TTGTTAGTGAGT
 
 #-------------------------------------------------------------------------
 #-------------------------------------------------------------------------