Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011912.1 Kokia drynarioides strain JFW-HI SEQ_126910, 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: 6715
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Found at i:3942 original size:99 final size:99
Alignment explanation
Indices: 3828--4026 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
3818 TAATCTGAGG
*
3828 AAACAATAAATTAAAATGTGATGAAAACGAACAAACTAACAAGACATGTGAGAGATAATTGAAAA
1 AAACAATAAATTAAAATGTGATGAAAACGAACAAACTAACAAGACATGTGAGAGACAATTGAAAA
3893 GTCAAACAATAAAGCATTTTCTAATATTGCAACA
66 GTCAAACAATAAAGCATTTTCTAATATTGCAACA
3927 AAACAATAAATTAAAATGTGATGAAAACGAACAAACTAACAAGACATGTGAGAGACAATTGAAAA
1 AAACAATAAATTAAAATGTGATGAAAACGAACAAACTAACAAGACATGTGAGAGACAATTGAAAA
3992 GTCAAACAATAAAGCATTTTCTAATATTGCAACA
66 GTCAAACAATAAAGCATTTTCTAATATTGCAACA
4026 A
1 A
4027 TGGCTGCCAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.22
Consensus pattern (99 bp):
AAACAATAAATTAAAATGTGATGAAAACGAACAAACTAACAAGACATGTGAGAGACAATTGAAAA
GTCAAACAATAAAGCATTTTCTAATATTGCAACA
Found at i:4406 original size:3 final size:3
Alignment explanation
Indices: 4400--4425 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4390 TTTTATTATT
4400 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
4426 TAAAAAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Done.