Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002732.1 Kokia drynarioides strain JFW-HI SEQ_115036, 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: 5583
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Found at i:4375 original size:17 final size:17
Alignment explanation
Indices: 4348--4388 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4338 GGACAAAGTA
4348 GTTACAAGAATATGAAAG
1 GTTA-AAGAATATGAAAG
*
4366 GTTAAAGAATATGGAAG
1 GTTAAAGAATATGAAAG
4383 GTTAAA
1 GTTAAA
4389 CGTCAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (17 bp):
GTTAAAGAATATGAAAG
Found at i:5307 original size:55 final size:55
Alignment explanation
Indices: 5246--5354 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
5236 TCTTTCTTTA
*
5246 AGCACTCCATTATCACTAAATTCTCTTTAGCAGTCTTAATGATATTTAAATCATT
1 AGCACTCCATTATCACTAAATTCTCTTCAGCAGTCTTAATGATATTTAAATCATT
* *
5301 AGCACTCCATTATCACTAAATTTTCTTCAGGAGTCTTAATGATATTTAAATCAT
1 AGCACTCCATTATCACTAAATTCTCTTCAGCAGTCTTAATGATATTTAAATCAT
5355 CAACATACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (55 bp):
AGCACTCCATTATCACTAAATTCTCTTCAGCAGTCTTAATGATATTTAAATCATT
Done.