Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000949.1 Kokia drynarioides strain JFW-HI SEQ_112120, 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: 2296
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Found at i:439 original size:62 final size:62
Alignment explanation
Indices: 342--467 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
332 CCAAGCATTA
*
342 AATTATATCTTATAAGAAGAAGATTCATATGTAGGTATGAAATTACCAGACCAAATCAATTG
1 AATTATATCTTATAAGAAGAAGATTCATATATAGGTATGAAATTACCAGACCAAATCAATTG
404 AATTATATCTTATAAGAAGAAGATTCATATATAGGTATGAAATTACCAGACCAAATCAATTG
1 AATTATATCTTATAAGAAGAAGATTCATATATAGGTATGAAATTACCAGACCAAATCAATTG
466 AA
1 AA
468 GTCAAAATCA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (62 bp):
AATTATATCTTATAAGAAGAAGATTCATATATAGGTATGAAATTACCAGACCAAATCAATTG
Found at i:2269 original size:101 final size:101
Alignment explanation
Indices: 2094--2290 Score: 376
Period size: 101 Copynumber: 2.0 Consensus size: 101
2084 GATTCCATAA
*
2094 ATTTCCACGTGGCAGGAAACAACTTCTTGTCATTGTTATCATTATTATTAATCATACAAATGTGC
1 ATTTCCACGTGGCAGGAAACAACTTCTTATCATTGTTATCATTATTATTAATCATACAAATGTGC
2159 TTGCACATTTTTATCATTTTTGGAAGATTTAGCAAG
66 TTGCACATTTTTATCATTTTTGGAAGATTTAGCAAG
*
2195 ATTTCCACTTGGCAGGAAACAACTTCTTATCATTGTTATCATTATTATTAATCATACAAATGTGC
1 ATTTCCACGTGGCAGGAAACAACTTCTTATCATTGTTATCATTATTATTAATCATACAAATGTGC
2260 TTGCACATTTTTATCATTTTTGGAAGATTTA
66 TTGCACATTTTTATCATTTTTGGAAGATTTA
2291 TTCTTG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (101 bp):
ATTTCCACGTGGCAGGAAACAACTTCTTATCATTGTTATCATTATTATTAATCATACAAATGTGC
TTGCACATTTTTATCATTTTTGGAAGATTTAGCAAG
Done.