Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006810.1 Kokia drynarioides strain JFW-HI SEQ_121409, 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: 12014
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:3266 original size:58 final size:58
Alignment explanation
Indices: 3198--3312 Score: 185
Period size: 58 Copynumber: 2.0 Consensus size: 58
3188 ATCAACAAAC
* * *
3198 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAATACTCATAAAT
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAAAAACACTCATAAAT
* *
3256 TAAACCCAAATATTTTTAAACTCAAATATAATTTTATTCCTAAAAAACACTCATAAA
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAAAAACACTCATAAA
3313 CAAGTCTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAAAAACACTCATAAAT
Found at i:10828 original size:6 final size:6
Alignment explanation
Indices: 10817--10868 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
10807 TCTCTTCTGA
10817 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT
10865 TTGG
1 TTGG
10869 TGATAGGACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TTGGGT
Done.