Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga09g00357.N347
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2445
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Found at i:1169 original size:586 final size:586
Alignment explanation
Indices: 57--1230 Score: 2276
Period size: 586 Copynumber: 2.0 Consensus size: 586
47 GGAATGCTAC
57 CTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGTAAGTATGA
1 CTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGTAAGTATGA
122 ACAAATTCAGACTGTGAAACTGCGAATGGCTCATTAAATCAGTTATAGTTTGTTTGATGGTATTT
66 ACAAATTCAGACTGTGAAACTGCGAATGGCTCATTAAATCAGTTATAGTTTGTTTGATGGTATTT
187 ACTACTCGGATAACCGTAGTAATTCTAGAGCTAATACGTGCAACAAACCCCGACTTCTGGAAGGG
131 ACTACTCGGATAACCGTAGTAATTCTAGAGCTAATACGTGCAACAAACCCCGACTTCTGGAAGGG
252 ATGCATTTATTAGATAAAAGGTCGACGCGAGCTTTGCCCATTGCTCTGATGATTCATGATAACTC
196 ATGCATTTATTAGATAAAAGGTCGACGCGAGCTTTGCCCATTGCTCTGATGATTCATGATAACTC
*
317 GACAGATCGCACGGCCTTTGTGCCGGCGATGCATCATTCAAATTTCTGCCCTATCAACTTTCGAT
261 GACAGATCGCACGGCCTTTGTGCCGGCGACGCATCATTCAAATTTCTGCCCTATCAACTTTCGAT
382 GGTAGGATAGTGGCCTACTATGGTGGTGACGAGTGACAGAGAATTAGGGTTCGATTCCGGAGAGG
326 GGTAGGATAGTGGCCTACTATGGTGGTGACGAGTGACAGAGAATTAGGGTTCGATTCCGGAGAGG
*
447 GAGCCTGAGAAACGGCTACCACATCCAAGGAAGGCAGCAGGCGCGCAAATTACCCAATCTTGACA
391 GAGCCTGAGAAACGGCTACCACATCCAAGGAAGGCAGCAGGCGCGCAAATTACCCAATCCTGACA
512 CGGGGAGGTAGTGACAATAAATAACAATACCGGGCTCTATGAGTCTGGTAATTGGAATGAGTACA
456 CGGGGAGGTAGTGACAATAAATAACAATACCGGGCTCTATGAGTCTGGTAATTGGAATGAGTACA
577 ATCTAAATCCCTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCA
521 ATCTAAATCCCTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCA
642 G
586 G
643 CTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGTAAGTATGA
1 CTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGTAAGTATGA
708 ACAAATTCAGACTGTGAAACTGCGAATGGCTCATTAAATCAGTTATAGTTTGTTTGATGGTATTT
66 ACAAATTCAGACTGTGAAACTGCGAATGGCTCATTAAATCAGTTATAGTTTGTTTGATGGTATTT
*
773 GCTACTCGGATAACCGTAGTAATTCTAGAGCTAATACGTGCAACAAACCCCGACTTCTGGAAGGG
131 ACTACTCGGATAACCGTAGTAATTCTAGAGCTAATACGTGCAACAAACCCCGACTTCTGGAAGGG
* *
838 ATGCATTTATTAGATAAAAGGTCGACGCGGGCTTTGCCCGTTGCTCTGATGATTCATGATAACTC
196 ATGCATTTATTAGATAAAAGGTCGACGCGAGCTTTGCCCATTGCTCTGATGATTCATGATAACTC
*
903 GACGGATCGCACGGCCTTTGTGCCGGCGACGCATCATTCAAATTTCTGCCCTATCAACTTTCGAT
261 GACAGATCGCACGGCCTTTGTGCCGGCGACGCATCATTCAAATTTCTGCCCTATCAACTTTCGAT
* *
968 GGTAGGATAGTGGCCTACTATGGTGGTGACGGGTGACGGAGAATTAGGGTTCGATTCCGGAGAGG
326 GGTAGGATAGTGGCCTACTATGGTGGTGACGAGTGACAGAGAATTAGGGTTCGATTCCGGAGAGG
1033 GAGCCTGAGAAACGGCTACCACATCCAAGGAAGGCAGCAGGCGCGCAAATTACCCAATCCTGACA
391 GAGCCTGAGAAACGGCTACCACATCCAAGGAAGGCAGCAGGCGCGCAAATTACCCAATCCTGACA
1098 CGGGGAGGTAGTGACAATAAATAACAATACCGGGCTCTATGAGTCTGGTAATTGGAATGAGTACA
456 CGGGGAGGTAGTGACAATAAATAACAATACCGGGCTCTATGAGTCTGGTAATTGGAATGAGTACA
1163 ATCTAAATCCCTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCA
521 ATCTAAATCCCTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCA
1228 G
586 G
1229 CT
1 CT
1231 CCAATAGCGT
Statistics
Matches: 580, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
586 580 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (586 bp):
CTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGTAAGTATGA
ACAAATTCAGACTGTGAAACTGCGAATGGCTCATTAAATCAGTTATAGTTTGTTTGATGGTATTT
ACTACTCGGATAACCGTAGTAATTCTAGAGCTAATACGTGCAACAAACCCCGACTTCTGGAAGGG
ATGCATTTATTAGATAAAAGGTCGACGCGAGCTTTGCCCATTGCTCTGATGATTCATGATAACTC
GACAGATCGCACGGCCTTTGTGCCGGCGACGCATCATTCAAATTTCTGCCCTATCAACTTTCGAT
GGTAGGATAGTGGCCTACTATGGTGGTGACGAGTGACAGAGAATTAGGGTTCGATTCCGGAGAGG
GAGCCTGAGAAACGGCTACCACATCCAAGGAAGGCAGCAGGCGCGCAAATTACCCAATCCTGACA
CGGGGAGGTAGTGACAATAAATAACAATACCGGGCTCTATGAGTCTGGTAATTGGAATGAGTACA
ATCTAAATCCCTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCA
G
Done.