Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001536.1 Kokia drynarioides strain JFW-HI SEQ_113106, 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: 4395
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Found at i:2087 original size:57 final size:57
Alignment explanation
Indices: 2018--2134 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
2008 GTCTTGATGA
2018 TAAGAAGTAAGCAAATTAAACTTCTTGTAGTAGACTTTGAATCCAATCAAAAGTTAT
1 TAAGAAGTAAGCAAATTAAACTTCTTGTAGTAGACTTTGAATCCAATCAAAAGTTAT
2075 TAAGAAGTAAGCAAATTAAACTTCTTGTAGTAGACTTTGAATCCAATCAAAAGTTAT
1 TAAGAAGTAAGCAAATTAAACTTCTTGTAGTAGACTTTGAATCCAATCAAAAGTTAT
2132 TAA
1 TAA
2135 TAGCAAACTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (57 bp):
TAAGAAGTAAGCAAATTAAACTTCTTGTAGTAGACTTTGAATCCAATCAAAAGTTAT
Found at i:4347 original size:14 final size:14
Alignment explanation
Indices: 4328--4358 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4318 TGAATTTAAT
4328 AAAATTTAATTTTA
1 AAAATTTAATTTTA
4342 AAAATTTAATTTTA
1 AAAATTTAATTTTA
4356 AAA
1 AAA
4359 TCTAAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAATTTAATTTTA
Done.