Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga11g03517.M1
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: 7135
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Found at i:1372 original size:432 final size:417
Alignment explanation
Indices: 576--1416 Score: 1117
Period size: 432 Copynumber: 2.0 Consensus size: 417
566 GTCAATCTAT
* ** * * * *
576 TAGTAAGGATTCAGATGCCTGTGATGAACTGGGTGGCATAATAAGGAAGATGGAGCCTAGTTTGG
1 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTAGTTTGA
641 AACAAGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
66 AACAAGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
* * ** *
706 GGAAAATTATCTGGGTTGGAAGGTGATGTGTTGGGAGATCATGACGATGTCTCTCAACCACATAA
131 GGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCATGAAGATGTCTCTCAACCACATAA
** * * * *
771 ATTTGACCCCTCTGTTGATGGGGCATTGAAAGCTCCAAATATAAGAAATACTGACTTATCTGAGA
196 ATTTGACCCCTCTACTGATAGGGCATTGAAAGCTCCAAACACAAGAAATACTGACTTACCTGAGA
* * * * *
836 GAGAGGAGTCTAAAGATGGTGAAGAAATTGTTGTTAATGAGAATCAAGTGGAAGTTTCGGTTGAT
261 GAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAATCAAAATCAAGTGGAAGCTTCGGTTGAT
* * * **
901 CAAGTTGTGGATAACAGGGAACAGGTTGATAACTTTGCTTCTGGGTCTCAAACTGATTTTGTGAT
326 CAAGTTGTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCACAAACTGATACTGTGAT
966 TCCCTCTGTGCAAAACACCTGTGCCAG
391 TCCCTCTGTGCAAAACACCTGTGCCAG
* *
993 TAGTAAGGATTCAGATGCCAGTGATGAAGAAGGCGGCATAATAAAGCAGATGGAACCTAGTTTGA
1 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTAGTTTGA
* * *
1058 AACATGGAGATTGTGGTCTTTCTGAAGTAGATGGTGGCTTACAGCCTGCCTTACAGACAGGTGAG
66 AACAAGGAGATAGTGGTCTTTCT-AA--AG-T--AGGCTTACAGCCTGCCTTACAGACAGGTGAG
* *
1123 ATTCCAGGAAAGTTTTCTGGGTTGAAAGGTGATGTATCAGGAGATCATTTGTTGGTTGAAGATGT
125 ATTCCAGGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCA---------TGAAGATGT
* * * * * * *
1188 TTCTCAATCACATGAATTTGAGCCCTCTACTGATAGGGCATTGGAAGTTCCAAACACGAGAAATA
181 CTCTCAACCACATAAATTTGACCCCTCTACTGATAGGGCATTGAAAGCTCCAAACACAAGAAATA
* *
1253 CTGACTTACCTGAGAGAGATGAGTCTAAAGATTGTGAACAAATTGTTGCTAATCAAAATCAAGTG
246 CTGACTTACCTGAGAGAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAATCAAAATCAAGTG
1318 GAAGCTTCGGTTGATCAA-TTAGTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCAC
311 GAAGCTTCGGTTGATCAAGTT-GTGGATAACAGGGAACAGGTAGATAAATTTGCTTCTGGGTCAC
**
1382 AAGTTGATACTGTGATTCCCTCTGTGCAAAACACC
375 AAACTGATACTGTGATTCCCTCTGTGCAAAACACC
1417 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.