Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga12g00354.F3
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: 3160
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Found at i:2563 original size:201 final size:203
Alignment explanation
Indices: 2199--2647 Score: 632
Period size: 201 Copynumber: 2.2 Consensus size: 203
2189 CTTTAAATGC
* * * * *
2199 AGGTCACAGAAGCTGAAGCTGCTGGGCTGACTTCTAGCTCAGATGAGTTAGAGAAGAATATTGTA
1 AGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAGTCAGAGAAGAATATTGTA
* *
2264 AATCAAGGCACTGCTCCAAGAAGAATACGCCTGCAAATTAATCTTTCTACTGGACCAATGAAAGG
66 AACCAAGCCACTGCTCCAAGAAGAATACGCCTGC--A--AATCTTTCTACTGGACCAATGAAAGG
* * * *
2329 TTCTGCAGGCTGTGTCGATGGTGGGAGCATGACAAGTCCTGGCCTCGTTGAAGAAGAAGTTCAGT
127 TTCTGCAGGCTGTATCGATGGTGGGAACATGACAAGTCCTGGCCTCGGTAAAGAAGAAGTTCAGT
*
2394 CTGCTCTAACCG
192 CTGCGCTAACCG
*
2406 AGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAGTCAGAGATGAATATTGTA
1 AGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAGTCAGAGAAGAATATTGTA
* * ** * *
2471 AACCAAGCCATTGCTCCTAGAAGAATACGTTTGC-AA-CTTTCTACTGGGCCAATGAATGGTTCT
66 AACCAAGCCACTGCTCCAAGAAGAATACGCCTGCAAATCTTTCTACTGGACCAATGAAAGGTTCT
2534 GCAGGCTGTATCGATGGTGGGAACATGACAAGTCCTGGCCTCGGTAAAGAAGAAGTTCAGTCTGC
131 GCAGGCTGTATCGATGGTGGGAACATGACAAGTCCTGGCCTCGGTAAAGAAGAAGTTCAGTCTGC
*
2599 GCTAACTG
196 GCTAACCG
* * * *
2607 AGGCCACAGAAGATGAAGCTACAGGACAGATTTCTAGCTCT
1 AGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCT
2648 TGCAAGACTT
Statistics
Matches: 218, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
201 129 0.59
202 2 0.01
207 87 0.40
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (203 bp):
AGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAGTCAGAGAAGAATATTGTA
AACCAAGCCACTGCTCCAAGAAGAATACGCCTGCAAATCTTTCTACTGGACCAATGAAAGGTTCT
GCAGGCTGTATCGATGGTGGGAACATGACAAGTCCTGGCCTCGGTAAAGAAGAAGTTCAGTCTGC
GCTAACCG
Done.