Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004330.1 Kokia drynarioides strain JFW-HI SEQ_117654, 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: 1681
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Found at i:364 original size:68 final size:68
Alignment explanation
Indices: 255--389 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
245 CATAATTTTT
* * *
255 AAATTGAATTATTTTCGTAATTAATAAAAAATATGGATTACTTTTATAAAAAGCTTTTAACTTTA
1 AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA
320 AAA
66 AAA
323 AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA
1 AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA
388 AA
66 AA
390 TGGCTAATCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (68 bp):
AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA
AAA
Found at i:1141 original size:15 final size:15
Alignment explanation
Indices: 1121--1151 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1111 TTATTGCTTT
1121 TTTATTATATTTTGG
1 TTTATTATATTTTGG
1136 TTTATTATATTTTGG
1 TTTATTATATTTTGG
1151 T
1 T
1152 ATTTACTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (15 bp):
TTTATTATATTTTGG
Done.