Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008001.1 Kokia drynarioides strain JFW-HI SEQ_122653, 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: 5219
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Found at i:3489 original size:484 final size:484
Alignment explanation
Indices: 2574--3544 Score: 1861
Period size: 484 Copynumber: 2.0 Consensus size: 484
2564 CGGGCTAATC
*
2574 TACGAAAATAGAACTAGCTTTGATACCACTTGCTGGGGATTGACTTGATTAAGCAATGAAGAAAT
1 TACGAAAATAGAACTAGCTTTGATACCACTTGCTGGGGATCGACTTGATTAAGCAATGAAGAAAT
2639 AAAAATAGCAGAAGAAATTGAGAAATTGAGCACACAAATTTAACGTGGAAAAACCCCTCCAAAGA
66 AAAAATAGCAGAAGAAATTGAGAAATTGAGCACACAAATTTAACGTGGAAAAACCCCTCCAAAGA
2704 GGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACAAAGAGTGCCAAAAAG
131 GGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACAAAGAGTGCCAAAAAG
2769 ATGGAGATAAAAACTGAACCTGGAAACTCGAAAATAAAGAACTTTCAAAACGTACACACAAAATA
196 ATGGAGATAAAAACTGAACCTGGAAACTCGAAAATAAAGAACTTTCAAAACGTACACACAAAATA
2834 CTCAATAAAGTGTTATGAGTTCTAATCTTTAATGGGTGTATTTTCTAAGATTGTAAAAAATCATC
261 CTCAATAAAGTGTTATGAGTTCTAATCTTTAATGGGTGTATTTTCTAAGATTGTAAAAAATCATC
*
2899 TTTATGAGCTAAATTTGTAGGTCAAATAATAATAAAATAATTTAGATTAATCATAGTTTGATTGA
326 TTTATGAGCTAAATTTGTAGGTCAAATAATAATAAAATAATCTAGATTAATCATAGTTTGATTGA
*
2964 AACAATTAAACATAGTTTAACTGGAAGATTATTTCTCAAATTTGACTGAAATATGAGATATACTC
391 AACAATTAAACATAGTTTAACTGGAAGATTATTTATCAAATTTGACTGAAATATGAGATATACTC
3029 AATAACAACAATATTGATCATCAAACTGT
456 AATAACAACAATATTGATCATCAAACTGT
* *
3058 TACGAAAATAGAACTAGCTTTGATACCACTTGGTGGGGATCGACTTGATTAAGTAATGAAGAAAT
1 TACGAAAATAGAACTAGCTTTGATACCACTTGCTGGGGATCGACTTGATTAAGCAATGAAGAAAT
*
3123 AAAAATAGCAGAAGAAATTGAGAAATTGAGCACACAAATTTAACGTGGAAAAACCCCTCTAAAGA
66 AAAAATAGCAGAAGAAATTGAGAAATTGAGCACACAAATTTAACGTGGAAAAACCCCTCCAAAGA
3188 GGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACAAAGAGTGCCAAAAAG
131 GGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACAAAGAGTGCCAAAAAG
* * *
3253 ATGGAGTTAAAAACTGAACTTTGAAACTCGAAAATAAAGAACTTTCAAAACGTACACACAAAATA
196 ATGGAGATAAAAACTGAACCTGGAAACTCGAAAATAAAGAACTTTCAAAACGTACACACAAAATA
3318 CTCAATAAAGTGTTATGAGTTCTAATCTTTAATGGGTGTATTTTCTAAGATTGTAAAAAATCATC
261 CTCAATAAAGTGTTATGAGTTCTAATCTTTAATGGGTGTATTTTCTAAGATTGTAAAAAATCATC
3383 TTTATGAGCTAAATTTGTAGGTCAAATAATAATAAAATAATCTAGATTAATCATAGTTTGATTGA
326 TTTATGAGCTAAATTTGTAGGTCAAATAATAATAAAATAATCTAGATTAATCATAGTTTGATTGA
3448 AACAATTAAACATAGTTTAACTGGAAGATTATTTATCAAATTTGACTGAAATATGAGATATACTC
391 AACAATTAAACATAGTTTAACTGGAAGATTATTTATCAAATTTGACTGAAATATGAGATATACTC
3513 AATAACAACAATATTGATCATCAAACTGT
456 AATAACAACAATATTGATCATCAAACTGT
3542 TAC
1 TAC
3545 TTGAAGTCCG
Statistics
Matches: 478, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
484 478 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (484 bp):
TACGAAAATAGAACTAGCTTTGATACCACTTGCTGGGGATCGACTTGATTAAGCAATGAAGAAAT
AAAAATAGCAGAAGAAATTGAGAAATTGAGCACACAAATTTAACGTGGAAAAACCCCTCCAAAGA
GGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACAAAGAGTGCCAAAAAG
ATGGAGATAAAAACTGAACCTGGAAACTCGAAAATAAAGAACTTTCAAAACGTACACACAAAATA
CTCAATAAAGTGTTATGAGTTCTAATCTTTAATGGGTGTATTTTCTAAGATTGTAAAAAATCATC
TTTATGAGCTAAATTTGTAGGTCAAATAATAATAAAATAATCTAGATTAATCATAGTTTGATTGA
AACAATTAAACATAGTTTAACTGGAAGATTATTTATCAAATTTGACTGAAATATGAGATATACTC
AATAACAACAATATTGATCATCAAACTGT
Done.