Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010391.1 Kokia drynarioides strain JFW-HI SEQ_125269, 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: 2131
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Found at i:2087 original size:17 final size:17
Alignment explanation
Indices: 2065--2130 Score: 89
Period size: 17 Copynumber: 3.9 Consensus size: 17
2055 CATACTCCCT
2065 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
*
2082 TTAAATTT-GTTTAAAA
1 TTAAATTTATTTTAAAA
*
2098 TTTAAATTTATTTTAAAT
1 -TTAAATTTATTTTAAAA
*
2116 TTAAATTTAATTTAA
1 TTAAATTTATTTTAA
2131 G
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.16
17 30 0.70
18 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:2117 original size:7 final size:6
Alignment explanation
Indices: 2064--2130 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
2054 CCATACTCCC
* * * *
2064 TTTAAA TTT-AT TTTAAA ATTAAA TTT--G TTTAAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
2109 TTTAAA TTTAAA TTT-AA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAA
2131 G
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
4 3 0.06
5 13 0.28
6 28 0.60
7 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Done.