Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010327.1 Corchorus olitorius cultivar O-4 contig10359, 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: 3903
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Found at i:2622 original size:21 final size:21
Alignment explanation
Indices: 2597--2679 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 21
2587 TATCTTAGAT
2597 ATAAT-ATATATTATTAAATAA
1 ATAATAATATATT-TTAAATAA
2618 ATAATAAATATATTTTAAAT-A
1 ATAAT-AATATATTTTAAATAA
* **
2639 ATAAATAATGA-GTTCAAAATAA
1 AT-AATAAT-ATATTTTAAATAA
2661 ATAAATAATATATATTTAA
1 AT-AATAATATAT-TTTAA
2680 TTACTAAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
21 18 0.37
22 21 0.43
23 10 0.20
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAATAATATATTTTAAATAA
Found at i:2630 original size:25 final size:25
Alignment explanation
Indices: 2599--2647 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2589 TCTTAGATAT
*
2599 AATATATATT-ATTAAATAAATAATA
1 AATATATATTAAAT-AATAAATAATA
*
2624 AATATATTTTAAATAATAAATAAT
1 AATATATATTAAATAATAAATAAT
2648 GAGTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATATATATTAAATAATAAATAATA
Done.