Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005420.1 Kokia drynarioides strain JFW-HI SEQ_119441, 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: 1707
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Found at i:554 original size:197 final size:197
Alignment explanation
Indices: 219--622 Score: 632
Period size: 197 Copynumber: 2.0 Consensus size: 197
209 GCACAAGCTC
219 ATTGGAATGACACAAAAACGAAAGAAAATGATCCTTTTCACATACCCACGACAAGATTAGAGGTA
1 ATTGGAATGACACAAAAACGAAAGAAAATGATCCTTTTCACATACCCACGACAAGATTAGAGGTA
* * *
284 AGGAGCGAAGCTTGTGACAGAGTGTGGCGAAAACGAAGTGAAACAAATTGGTTCTAGCACTAATT
66 AGGAGCAAAGCTTGTGACAGAGTGTGGCGAAAAAGAAGTGAAACAAATTGGTTCTAGCACTAACT
* * *
349 CTCACGAATAACAACGTTAAAGGAGAAGGAGAAGGAAGGGTTAGGTTTGCAAGGTGACGAGGAGT
131 CTCACGAATAACAACGTTAAAGAAGAAGGAGAAAGAAGGGTTAGGTTCGCAAGGTGACGAGGAGT
414 CT
196 CT
*
416 ATTGGAATGACACAAAAACGGAAGAAAATGATCCTTTTCACATACCCAC-ATCAAGATTAGAGGT
1 ATTGGAATGACACAAAAACGAAAGAAAATGATCCTTTTCACATACCCACGA-CAAGATTAGAGGT
* * * * **
480 AAGGAGCAAAG-TTCGTGACGGAGTGTGGCTAAAAAGAAGTGAAACAAGTTTGTTCTAGCACTGG
65 AAGGAGCAAAGCTT-GTGACAGAGTGTGGCGAAAAAGAAGTGAAACAAATTGGTTCTAGCACTAA
* *
544 CTCTCACGAATAGCAACGTTAAAGAAGAAGGAGAAAGAAGGGTTAGGTTCGTAAGGTGACGAGGA
129 CTCTCACGAATAACAACGTTAAAGAAGAAGGAGAAAGAAGGGTTAGGTTCGCAAGGTGACGAGGA
609 GTCT
194 GTCT
613 ATTGGTAATG
1 ATTGG-AATG
623 GCGGTGTGGT
Statistics
Matches: 189, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
196 3 0.02
197 182 0.96
198 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (197 bp):
ATTGGAATGACACAAAAACGAAAGAAAATGATCCTTTTCACATACCCACGACAAGATTAGAGGTA
AGGAGCAAAGCTTGTGACAGAGTGTGGCGAAAAAGAAGTGAAACAAATTGGTTCTAGCACTAACT
CTCACGAATAACAACGTTAAAGAAGAAGGAGAAAGAAGGGTTAGGTTCGCAAGGTGACGAGGAGT
CT
Done.