Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007231.1 Kokia drynarioides strain JFW-HI SEQ_121846, 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: 3434
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Found at i:3117 original size:28 final size:28
Alignment explanation
Indices: 3068--3131 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
3058 CTAAAACTTT
3068 AAAATTTAGCTCTTATATTTTTAATTTAA
1 AAAATTTAGCTCTTATATTTTTAATTT-A
* *
3097 AAAATTTAG-TCTTA-ATTTTTTTATTTC
1 AAAATTTAGCTCTTATA-TTTTTAATTTA
3124 AAAATTTA
1 AAAATTTA
3132 AATTCAACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 9 0.28
28 14 0.44
29 9 0.28
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (28 bp):
AAAATTTAGCTCTTATATTTTTAATTTA
Found at i:3117 original size:29 final size:27
Alignment explanation
Indices: 3068--3131 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
3058 CTAAAACTTT
3068 AAAATTTAGCTCTTATATTTTTAATTTAA
1 AAAATTTAGCTCTTATATTTTT-ATTT-A
* *
3097 AAAATTTAG-TCTTAATTTTTTTATTTC
1 AAAATTTAGCTCTT-ATATTTTTATTTA
3124 AAAATTTA
1 AAAATTTA
3132 AATTCAACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 8 0.25
28 8 0.25
29 16 0.50
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (27 bp):
AAAATTTAGCTCTTATATTTTTATTTA
Done.