Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001585.1 Kokia drynarioides strain JFW-HI SEQ_113195, 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: 17449
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Found at i:48 original size:35 final size:34
Alignment explanation
Indices: 1--84 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
* *
1 AAAATAATTTTAAA-CTTAAATTAAATTTAAAATTT
1 AAAATAAATTTAAATCTTAAA-CAAATTT-AAATTT
* *
36 AAAATAAATTTAAATTTTTAAACAAATTTAATTTT
1 AAAATAAATTTAAA-TCTTAAACAAATTTAAATTT
71 AAAATAAATTTAAA
1 AAAATAAATTTAAA
85 AGGAGTATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 32 0.74
36 6 0.14
37 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (34 bp):
AAAATAAATTTAAATCTTAAACAAATTTAAATTT
Found at i:50 original size:17 final size:17
Alignment explanation
Indices: 1--84 Score: 96
Period size: 18 Copynumber: 4.8 Consensus size: 17
* *
1 AAAATAATTTTAAACTT
1 AAAATAAATTTAAATTT
*
18 AAATTAAATTTAAAATTT
1 AAAATAAATTT-AAATTT
36 AAAATAAATTTAAATTTT
1 AAAATAAATTTAAA-TTT
* * *
54 TAAACAAATTTAATTTT
1 AAAATAAATTTAAATTT
71 AAAATAAATTTAAA
1 AAAATAAATTTAAA
85 AGGAGTATGG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
17 26 0.47
18 29 0.53
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATAAATTTAAATTT
Done.