Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g02317.F1
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: 2436
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Found at i:1639 original size:177 final size:177
Alignment explanation
Indices: 1386--1775 Score: 665
Period size: 177 Copynumber: 2.2 Consensus size: 177
1376 TGTATGTAGA
1386 GTTGGTGAAACATACAATGGAAA-ACCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGC
1 GTTGGTGAAACATACAAT-GAAAGACCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGC
* *
1450 ACCATAAGAACCGATCCATCACTCTCGGGTCAGTTAAAGAATTCAATTTCGACAATATTAATGGA
65 ACCATAAGAACCGATCCATCACTCTCGGGTCACTTAAAGAATTCAATTTCGACAATATTAATGCA
*
1515 GAGATAGAAGAAAATGCTACTAAGTCAGTGGAAACTTATGAAGGTCGT
130 GAGATAGAAGAAAATGCTACTAAGTCAGTGGAAACTCATGAAGGTCGT
* * *
1563 GTTGGTGAAACATACAATGAAAGGCCAGAGCAAGCTCCAGCAGATGGGGAAGGCAAACCACAGCA
1 GTTGGTGAAACATACAATGAAAGACCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGCA
* * *
1628 CCATAAGAACCGATCCATCACTCTTGGGTCACTTAAAGAATTCAATTTCGACAATGTTAATGCCG
66 CCATAAGAACCGATCCATCACTCTCGGGTCACTTAAAGAATTCAATTTCGACAATATTAATGCAG
* *
1693 AGATAGAAGAAAATGCTACTAAGTCGGTGGAAACTCATGAATGTCGT
131 AGATAGAAGAAAATGCTACTAAGTCAGTGGAAACTCATGAAGGTCGT
1740 GTTGGTGAAACATACAATGAAAGACCAGAGAAAGCT
1 GTTGGTGAAACATACAATGAAAGACCAGAGAAAGCT
1776 GAAGTATCTC
Statistics
Matches: 199, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 4 0.02
177 195 0.98
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (177 bp):
GTTGGTGAAACATACAATGAAAGACCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGCA
CCATAAGAACCGATCCATCACTCTCGGGTCACTTAAAGAATTCAATTTCGACAATATTAATGCAG
AGATAGAAGAAAATGCTACTAAGTCAGTGGAAACTCATGAAGGTCGT
Done.