Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01007871.1 Corchorus olitorius cultivar O-4 contig07898, 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: 1709
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Found at i:692 original size:10 final size:10
Alignment explanation
Indices: 677--738 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 10
667 CTCTGTAGTG
*
677 TATATTGTTA
1 TATATTGATA
687 TATATTGATA
1 TATATTGATA
697 TATA-TGATA
1 TATATTGATA
706 TATA-TGATA
1 TATATTGATA
715 TATGA-T-ATA
1 TAT-ATTGATA
724 TGATATATGATA
1 T-ATAT-TGATA
736 TAT
1 TAT
739 GATACTAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
9 22 0.48
10 17 0.37
11 3 0.07
12 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (10 bp):
TATATTGATA
Found at i:708 original size:7 final size:7
Alignment explanation
Indices: 705--742 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
695 TATATATGAT
705 ATATATG
1 ATATATG
712 ATATATG
1 ATATATG
719 ATATATG
1 ATATATG
726 ATATATG
1 ATATATG
733 ATATATG
1 ATATATG
740 ATA
1 ATA
743 CTAATAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (7 bp):
ATATATG
Done.