Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004810.1 Kokia drynarioides strain JFW-HI SEQ_118440, 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: 7294
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.36
Warning! 119 characters in sequence are not A, C, G, or T
Found at i:5685 original size:30 final size:31
Alignment explanation
Indices: 5634--5695 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
5624 AGCTTTGAAT
* *
5634 TGCATATTACCCTCTTCACTTA-AAAAAGAG
1 TGCACATTAACCTCTTCACTTAGAAAAAGAG
* *
5664 TGCACATTAACCTCTTTACTTAGAAAATGAG
1 TGCACATTAACCTCTTCACTTAGAAAAAGAG
5695 T
1 T
5696 CTCTTTGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (31 bp):
TGCACATTAACCTCTTCACTTAGAAAAAGAG
Found at i:5938 original size:7 final size:7
Alignment explanation
Indices: 5926--5971 Score: 92
Period size: 7 Copynumber: 6.6 Consensus size: 7
5916 TACAAAAGAG
5926 TTTTAAA
1 TTTTAAA
5933 TTTTAAA
1 TTTTAAA
5940 TTTTAAA
1 TTTTAAA
5947 TTTTAAA
1 TTTTAAA
5954 TTTTAAA
1 TTTTAAA
5961 TTTTAAA
1 TTTTAAA
5968 TTTT
1 TTTT
5972 TTTTTGAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTAAA
Done.