Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1466
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: 1690
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Found at i:480 original size:13 final size:13
Alignment explanation
Indices: 462--491 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
452 TTCACTTCAT
462 TATTAATACCAAA
1 TATTAATACCAAA
475 TATTAATACCAAA
1 TATTAATACCAAA
488 TATT
1 TATT
492 TAACAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (13 bp):
TATTAATACCAAA
Found at i:785 original size:13 final size:13
Alignment explanation
Indices: 767--796 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
757 TTCACTTCAT
767 TATTAATACCAAA
1 TATTAATACCAAA
780 TATTAATACCAAA
1 TATTAATACCAAA
793 TATT
1 TATT
797 TAACAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (13 bp):
TATTAATACCAAA
Found at i:962 original size:305 final size:305
Alignment explanation
Indices: 411--1012 Score: 1204
Period size: 305 Copynumber: 2.0 Consensus size: 305
401 CAAGACTCAA
411 TATTTCTTCAGAATTACCGTATGAAATATTTCCATATCAAATTCACTTCATTATTAATACCAAAT
1 TATTTCTTCAGAATTACCGTATGAAATATTTCCATATCAAATTCACTTCATTATTAATACCAAAT
476 ATTAATACCAAATATTTAACAACTTTGATTCAGATGAAATATCTAATATCAAATTCACATCAAAG
66 ATTAATACCAAATATTTAACAACTTTGATTCAGATGAAATATCTAATATCAAATTCACATCAAAG
541 AACATTTGACAGTAGCCTCAATTTAGGATCTAACCAACCATTCTTTTACAAATTATGAACAGTTG
131 AACATTTGACAGTAGCCTCAATTTAGGATCTAACCAACCATTCTTTTACAAATTATGAACAGTTG
606 ACAGTAGCTAAGTTGCTGTCTACAGCCTATCTACAGTCAGAATTTTGACAAATTGCAGCATTGAG
196 ACAGTAGCTAAGTTGCTGTCTACAGCCTATCTACAGTCAGAATTTTGACAAATTGCAGCATTGAG
671 TCTCATAACCAACAAGATACAATTAGTTACATTTAACAGGACTCT
261 TCTCATAACCAACAAGATACAATTAGTTACATTTAACAGGACTCT
716 TATTTCTTCAGAATTACCGTATGAAATATTTCCATATCAAATTCACTTCATTATTAATACCAAAT
1 TATTTCTTCAGAATTACCGTATGAAATATTTCCATATCAAATTCACTTCATTATTAATACCAAAT
781 ATTAATACCAAATATTTAACAACTTTGATTCAGATGAAATATCTAATATCAAATTCACATCAAAG
66 ATTAATACCAAATATTTAACAACTTTGATTCAGATGAAATATCTAATATCAAATTCACATCAAAG
846 AACATTTGACAGTAGCCTCAATTTAGGATCTAACCAACCATTCTTTTACAAATTATGAACAGTTG
131 AACATTTGACAGTAGCCTCAATTTAGGATCTAACCAACCATTCTTTTACAAATTATGAACAGTTG
911 ACAGTAGCTAAGTTGCTGTCTACAGCCTATCTACAGTCAGAATTTTGACAAATTGCAGCATTGAG
196 ACAGTAGCTAAGTTGCTGTCTACAGCCTATCTACAGTCAGAATTTTGACAAATTGCAGCATTGAG
976 TCTCATAACCAACAAGATACAATTAGTTACATTTAAC
261 TCTCATAACCAACAAGATACAATTAGTTACATTTAAC
1013 TAAATATGAA
Statistics
Matches: 297, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
305 297 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (305 bp):
TATTTCTTCAGAATTACCGTATGAAATATTTCCATATCAAATTCACTTCATTATTAATACCAAAT
ATTAATACCAAATATTTAACAACTTTGATTCAGATGAAATATCTAATATCAAATTCACATCAAAG
AACATTTGACAGTAGCCTCAATTTAGGATCTAACCAACCATTCTTTTACAAATTATGAACAGTTG
ACAGTAGCTAAGTTGCTGTCTACAGCCTATCTACAGTCAGAATTTTGACAAATTGCAGCATTGAG
TCTCATAACCAACAAGATACAATTAGTTACATTTAACAGGACTCT
Done.