Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011083.1 Corchorus capsularis cultivar CVL-1 contig11104, whole genome shotgun sequence
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: 2431
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Found at i:567 original size:13 final size:13
Alignment explanation
Indices: 546--576 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
536 GAAAAAATAC
*
546 AAATCAAAGGAAA
1 AAATTAAAGGAAA
559 AAATTAAAGGAAA
1 AAATTAAAGGAAA
572 AAATT
1 AAATT
577 CTTGTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (13 bp):
AAATTAAAGGAAA
Found at i:903 original size:81 final size:81
Alignment explanation
Indices: 768--930 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
758 TAGTATTTAT
768 TATGAAACTACAATTTTGGAGTTAATTTTGGATCTAAAATGAGATGTACAATTAGGTTTAACACA
1 TATGAAACTACAATTTTGGAGTTAATTTTGGATCTAAAATGAGATGTACAATTAGGTTTAACACA
*
833 ACAATTAGGGAGAAAA
66 ACAATTAAGGAGAAAA
849 TATGAAACTACAATTTTGGAGTTAATTTTGGATCTAAAATGAGATGTACAATTAGGTTTAACACA
1 TATGAAACTACAATTTTGGAGTTAATTTTGGATCTAAAATGAGATGTACAATTAGGTTTAACACA
914 ACAATTAAGGAGAAAA
66 ACAATTAAGGAGAAAA
930 T
1 T
931 TTTGGATCTA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (81 bp):
TATGAAACTACAATTTTGGAGTTAATTTTGGATCTAAAATGAGATGTACAATTAGGTTTAACACA
ACAATTAAGGAGAAAA
Done.