Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Cotton_A_00632
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, 999
Length: 1665
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Found at i:1162 original size:75 final size:75
Alignment explanation
Indices: 1057--1358 Score: 442
Period size: 75 Copynumber: 4.0 Consensus size: 75
1047 GGAACAACCT
*
1057 AATATGGGCCAGAGTACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGCA
1 AATATGGGCCAGAATACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGCA
1122 ACCACCTCAA
66 ACCACCTCAA
* *
1132 AATATGGGCCAGGATACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGAA
1 AATATGGGCCAGAATACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGCA
1197 ACCACCTCAA
66 ACCACCTCAA
* * *
1207 AATATGGGCCAGAATACAAGAGAGTCAGTCAGGTCAGAATCCTGGTTCCAAAATCCGCCACGACA
1 AATATGGGCCAGAATACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGCA
* *
1272 GCCACCACAA
66 ACCACCTCAA
* * * ** * * * *
1282 AATATGGGCCAGAATACAAGAGAGACAGTTAGGTCAGCACCCCAGTTCCCATATCAACAACGGCA
1 AATATGGGCCAGAATACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGCA
*
1347 ACCACCCCAA
66 ACCACCTCAA
1357 AA
1 AA
1359 CATGAATGCT
Statistics
Matches: 203, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 203 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (75 bp):
AATATGGGCCAGAATACAAGAGAGTCAGTCAGGTCAGAACCCTGGTTCCAAAATCCACCACGGCA
ACCACCTCAA
Done.