Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005563.1 Kokia drynarioides strain JFW-HI SEQ_119673, 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: 9368
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Found at i:6614 original size:13 final size:13
Alignment explanation
Indices: 6596--6620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6586 TGATACAGAT
6596 TTTCTTTTTCTTG
1 TTTCTTTTTCTTG
6609 TTTCTTTTTCTT
1 TTTCTTTTTCTT
6621 TATCTTTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTCTTG
Found at i:9007 original size:70 final size:70
Alignment explanation
Indices: 8894--9035 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
8884 CCACATGGTG
8894 TTTGATGAGAATTTTATTTAAATATTGTTATTTTTTTCTCCAAACTATTGTTTTGGGATTACTTT
1 TTTGATGAGAATTTTATTTAAATATTGTTATTTTTTTCTCCAAACTATTGTTTTGGGATTACTTT
8959 CTTTT
66 CTTTT
8964 TTTGATGAGAATTTTATTTAAATATTGTTATTTTTTTCTCCAAACTATTGTTTTGGGATTACTTT
1 TTTGATGAGAATTTTATTTAAATATTGTTATTTTTTTCTCCAAACTATTGTTTTGGGATTACTTT
9029 CTTTT
66 CTTTT
9034 TT
1 TT
9036 AGCCCTTAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.23, C:0.08, G:0.11, T:0.58
Consensus pattern (70 bp):
TTTGATGAGAATTTTATTTAAATATTGTTATTTTTTTCTCCAAACTATTGTTTTGGGATTACTTT
CTTTT
Done.