Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011328.1 Kokia drynarioides strain JFW-HI SEQ_126308, 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: 5877
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Warning! 116 characters in sequence are not A, C, G, or T
Found at i:1328 original size:664 final size:654
Alignment explanation
Indices: 60--1377 Score: 2546
Period size: 664 Copynumber: 2.0 Consensus size: 654
50 GCCATATTGT
60 TTGTGCAATCAAAATCAAGCTTGCTAGTGAAAAGGTAATGATCTCCCTCTGGTGATACCAAGACT
1 TTGTGCAATCAAAATCAAGCTTGCTAGTGAAAAGGTAATGATCTCCCTCTGGTGATACCAAGACT
125 GCCCCGACCCCATTGCCTGTGGCGTTTGAAGCTCCATCGAAATTAATCCTCCAAGGTCGTTCTTT
66 GCCCCGACCCCATTGCCTGTGGCGTTTGAAGCTCCATCGAAATTAATCCTCCAAGGTCGTTCTTT
190 CATGATTGCCCCTTCAGTAGCCGCAACATACATTAAATCCTCATTCGGGAAATCGAAGTCCATAG
131 CATGATTGCCCCTTCAGTAGCCGCAACATACATTAAATCCTCATTCGGGAAATCGAAGTCCATAG
255 GCTCATAATCTTCTAAAGCCCTACTGGCCAAGAAGTCTGCTATCGCACTTCCTTTTATTGCTTTC
196 GCTCATAATCTTCTAAAGCCCTACTGGCCAAGAAGTCTGCTATCGCACTTCCTTTTATTGCTTTC
320 TGATTGACATAGACTATGTCGAATTCTGAGAGCAAGATTTGTCATCAGCTAATCTCCAATTCAAT
261 TGATTGACATAGACTATGTCGAATTCTGAGAGCAAGATTTGTCATCAGCTAATCTCCAATTCAAT
385 GCTGCTGACTCCATCAAATACTTCAGAGGATCCAATTTCGAAATCAACCAAGTGGTGTGATATAG
326 GCTGCTGACTCCATCAAATACTTCAGAGGATCCAATTTCGAAATCAACCAAGTGGTGTGATATAG
450 CACGTATTGTCTTAATCTACGTGTAGTCCAGACTAGTGCACAACATAATTTCTCAATAGGTGAAT
391 CACGTATTGTCTTAATCTACGTGTAGTCCAGACTAGTGCACAACATAATTTCTCAATAGGTGAAT
515 ATCGTGTCTCGCAATCAATGAATTTCTTGCTAAGATAATATATCGCCCTTTCTTTCTTTTCGAAT
456 ATCGTGTCTCGCAATCAATGAATTTCTTGCTAAGATAATATATCGCCCTTTCTTTCTTTTCGAAT
580 TCATCATGTTGGCCTAGTACGCATCCCATGAAATTTTTAAAGACCGTTAAGTACATGATCAATGG
521 TCATCATGTTGGCCTAGTACGCATCCCATGAAATTTTTAAAGACCGTTAAGTACATGATCAATGG
645 CTTATTAGGAATTGAGGGTACCAAGATGGGAGCTTTGGATAAATAGTCTTTGACCTTATTAAAGG
586 CTTATTAGGAATTGAGGGTACCAAGATGGGAGCTTTGGATAAATAGTCTTTGACCTTATTAAAGG
710 TTTC
651 TTTC
714 NNNNNNNNNNTTGTGCAATCAAAATCAAGCTTGCTAGTGAAAAGGTAATGATCTCCCTCTGGTGA
1 ----------TTGTGCAATCAAAATCAAGCTTGCTAGTGAAAAGGTAATGATCTCCCTCTGGTGA
779 TACCAAGACTGCCCCGACCCCATTGCCTGTGGCGTTTGAAGCTCCATCGAAATTAATCCTCCAAG
56 TACCAAGACTGCCCCGACCCCATTGCCTGTGGCGTTTGAAGCTCCATCGAAATTAATCCTCCAAG
844 GTCGTTCTTTCATGATTGCCCCTTCAGTAGCCGCAACATACATTAAATCCTCATTCGGGAAATCG
121 GTCGTTCTTTCATGATTGCCCCTTCAGTAGCCGCAACATACATTAAATCCTCATTCGGGAAATCG
909 AAGTCCATAGGCTCATAATCTTCTAAAGCCCTACTGGCCAAGAAGTCTGCTATCGCACTTCCTTT
186 AAGTCCATAGGCTCATAATCTTCTAAAGCCCTACTGGCCAAGAAGTCTGCTATCGCACTTCCTTT
974 TATTGCTTTCTGATTGACATAGACTATGTCGAATTCTGAGAGCAAGATTTGTCATCAGCTAATCT
251 TATTGCTTTCTGATTGACATAGACTATGTCGAATTCTGAGAGCAAGATTTGTCATCAGCTAATCT
1039 CCAATTCAATGCTGCTGACTCCATCAAATACTTCAGAGGATCCAATTTCGAAATCAACCAAGTGG
316 CCAATTCAATGCTGCTGACTCCATCAAATACTTCAGAGGATCCAATTTCGAAATCAACCAAGTGG
1104 TGTGATATAGCACGTATTGTCTTAATCTACGTGTAGTCCAGACTAGTGCACAACATAATTTCTCA
381 TGTGATATAGCACGTATTGTCTTAATCTACGTGTAGTCCAGACTAGTGCACAACATAATTTCTCA
1169 ATAGGTGAATATCGTGTCTCGCAATCAATGAATTTCTTGCTAAGATAATATATCGCCCTTTCTTT
446 ATAGGTGAATATCGTGTCTCGCAATCAATGAATTTCTTGCTAAGATAATATATCGCCCTTTCTTT
1234 CTTTTCGAATTCATCATGTTGGCCTAGTACGCATCCCATGAAATTTTTAAAGACCGTTAAGTACA
511 CTTTTCGAATTCATCATGTTGGCCTAGTACGCATCCCATGAAATTTTTAAAGACCGTTAAGTACA
1299 TGATCAATGGCTTATTAGGAATTGAGGGTACCAAGATGGGAGCTTTGGATAAATAGTCTTTGACC
576 TGATCAATGGCTTATTAGGAATTGAGGGTACCAAGATGGGAGCTTTGGATAAATAGTCTTTGACC
1364 TTATTAAAGGTTTC
641 TTATTAAAGGTTTC
1378 CTGACATTCA
Statistics
Matches: 654, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
664 654 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (654 bp):
TTGTGCAATCAAAATCAAGCTTGCTAGTGAAAAGGTAATGATCTCCCTCTGGTGATACCAAGACT
GCCCCGACCCCATTGCCTGTGGCGTTTGAAGCTCCATCGAAATTAATCCTCCAAGGTCGTTCTTT
CATGATTGCCCCTTCAGTAGCCGCAACATACATTAAATCCTCATTCGGGAAATCGAAGTCCATAG
GCTCATAATCTTCTAAAGCCCTACTGGCCAAGAAGTCTGCTATCGCACTTCCTTTTATTGCTTTC
TGATTGACATAGACTATGTCGAATTCTGAGAGCAAGATTTGTCATCAGCTAATCTCCAATTCAAT
GCTGCTGACTCCATCAAATACTTCAGAGGATCCAATTTCGAAATCAACCAAGTGGTGTGATATAG
CACGTATTGTCTTAATCTACGTGTAGTCCAGACTAGTGCACAACATAATTTCTCAATAGGTGAAT
ATCGTGTCTCGCAATCAATGAATTTCTTGCTAAGATAATATATCGCCCTTTCTTTCTTTTCGAAT
TCATCATGTTGGCCTAGTACGCATCCCATGAAATTTTTAAAGACCGTTAAGTACATGATCAATGG
CTTATTAGGAATTGAGGGTACCAAGATGGGAGCTTTGGATAAATAGTCTTTGACCTTATTAAAGG
TTTC
Done.