Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Cotton_A_32046
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, 916
Length: 1527
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Found at i:1204 original size:183 final size:183
Alignment explanation
Indices: 950--1319 Score: 551
Period size: 183 Copynumber: 2.0 Consensus size: 183
940 AGAATCAGTC
* * *
950 ATTTATTAAAGACTAGTGATAGCTCAGAATATGGCCAAGGAATTCAATATGCCCTCAGCGAGTTT
1 ATTTATCAAAGACTAGTGATAGCTCAGAACATGGCCAAGGAATTCAATATGCCCTCAGCGAGTTC
* * ** *
1015 GAAGAGCTGCAAGGGTTGCAAAAGGGGTCTGTTACTCAGTCTGCCAGGTTTCAAGATGTAGTTGA
66 GAAGAGCAGCAAGCGTTGCAAAAGGGACCTGTTACTCAGTCTGCCAGGTCTCAAGATGTAGTTGA
1080 GACTTCAAATCAACCAAAGATCCCCTTAGAAGACAGAACCAGTTCATGGGACA
131 GACTTCAAATCAACCAAAGATCCCCTTAGAAGACAGAACCAGTTCATGGGACA
* ** * *
1133 ATTTATCAAAGACTAGTGATAGTTTGGAACATGGCCAAGGAATTCAATATGCCCTCTGTGAGTTC
1 ATTTATCAAAGACTAGTGATAGCTCAGAACATGGCCAAGGAATTCAATATGCCCTCAGCGAGTTC
* * *
1198 GAAGAGCAGCAAGCGTTGCGAAAGGGACCTGTTACTCAGTCTGTCAGGTCTCAGGATGTAGTTGA
66 GAAGAGCAGCAAGCGTTGCAAAAGGGACCTGTTACTCAGTCTGCCAGGTCTCAAGATGTAGTTGA
* *** *
1263 GACTTCAAATCAGCCAAAGATCCCCTTAGAAGACAGAATGGGTTTATGGGACA
131 GACTTCAAATCAACCAAAGATCCCCTTAGAAGACAGAACCAGTTCATGGGACA
1316 ATTT
1 ATTT
1320 GTGCCAGTTG
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
183 166 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (183 bp):
ATTTATCAAAGACTAGTGATAGCTCAGAACATGGCCAAGGAATTCAATATGCCCTCAGCGAGTTC
GAAGAGCAGCAAGCGTTGCAAAAGGGACCTGTTACTCAGTCTGCCAGGTCTCAAGATGTAGTTGA
GACTTCAAATCAACCAAAGATCCCCTTAGAAGACAGAACCAGTTCATGGGACA
Done.