Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga11g03517.M7
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: 7108
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Found at i:1345 original size:432 final size:417
Alignment explanation
Indices: 549--1389 Score: 1117
Period size: 432 Copynumber: 2.0 Consensus size: 417
539 GTCAATCTAT
* ** * * * *
549 TAGTAAGGATTCAGATGCCTGTGATGAACTGGGTGGCATAATAAGGAAGATGGAGCCTAGTTTGG
1 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTAGTTTGA
614 AACAAGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
66 AACAAGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
* * ** *
679 GGAAAATTATCTGGGTTGGAAGGTGATGTGTTGGGAGATCATGACGATGTCTCTCAACCACATAA
131 GGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCATGAAGATGTCTCTCAACCACATAA
** * * * *
744 ATTTGACCCCTCTGTTGATGGGGCATTGAAAGCTCCAAATATAAGAAATACTGACTTATCTGAGA
196 ATTTGACCCCTCTACTGATAGGGCATTGAAAGCTCCAAACACAAGAAATACTGACTTACCTGAGA
* * * * *
809 GAGAGGAGTCTAAAGATGGTGAAGAAATTGTTGTTAATGAGAATCAAGTGGAAGTTTCGGTTGAT
261 GAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAATCAAAATCAAGTGGAAGCTTCGGTTGAT
* * * **
874 CAAGTTGTGGATAACAGGGAACAGGTTGATAACTTTGCTTCTGGGTCTCAAACTGATTTTGTGAT
326 CAAGTTGTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCACAAACTGATACTGTGAT
939 TCCCTCTGTGCAAAACACCTGTGCCAG
391 TCCCTCTGTGCAAAACACCTGTGCCAG
* *
966 TAGTAAGGATTCAGATGCCAGTGATGAAGAAGGCGGCATAATAAAGCAGATGGAACCTAGTTTGA
1 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTAGTTTGA
* * *
1031 AACATGGAGATTGTGGTCTTTCTGAAGTAGATGGTGGCTTACAGCCTGCCTTACAGACAGGTGAG
66 AACAAGGAGATAGTGGTCTTTCT-AA--AG-T--AGGCTTACAGCCTGCCTTACAGACAGGTGAG
* *
1096 ATTCCAGGAAAGTTTTCTGGGTTGAAAGGTGATGTATCAGGAGATCATTTGTTGGTTGAAGATGT
125 ATTCCAGGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCA---------TGAAGATGT
* * * * * * *
1161 TTCTCAATCACATGAATTTGAGCCCTCTACTGATAGGGCATTGGAAGTTCCAAACACGAGAAATA
181 CTCTCAACCACATAAATTTGACCCCTCTACTGATAGGGCATTGAAAGCTCCAAACACAAGAAATA
* *
1226 CTGACTTACCTGAGAGAGATGAGTCTAAAGATTGTGAACAAATTGTTGCTAATCAAAATCAAGTG
246 CTGACTTACCTGAGAGAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAATCAAAATCAAGTG
1291 GAAGCTTCGGTTGATCAA-TTAGTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCAC
311 GAAGCTTCGGTTGATCAAGTT-GTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCAC
**
1355 AAGTTGATACTGTGATTCCCTCTGTGCAAAACACC
375 AAACTGATACTGTGATTCCCTCTGTGCAAAACACC
1390 CATTCCAGTA
Statistics
Matches: 362, Mismatches: 46, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
417 77 0.21
418 2 0.01
420 2 0.01
421 1 0.00
423 71 0.20
431 2 0.01
432 207 0.57
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (417 bp):
TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTAGTTTGA
AACAAGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
GGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCATGAAGATGTCTCTCAACCACATAA
ATTTGACCCCTCTACTGATAGGGCATTGAAAGCTCCAAACACAAGAAATACTGACTTACCTGAGA
GAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAATCAAAATCAAGTGGAAGCTTCGGTTGAT
CAAGTTGTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCACAAACTGATACTGTGAT
TCCCTCTGTGCAAAACACCTGTGCCAG
Done.