genome.fa.s1986.2.7.7.80.10.50.1000.txt.html

Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001986.1 Kokia drynarioides strain JFW-HI SEQ_113838, 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, 611

Length: 1019
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34


Found at i:1019 original size:540 final size:540

Alignment explanation


    Indices: 1--1019  Score: 2029
    Period size: 540  Copynumber: 1.9  Consensus size: 540

                                                                             
          1 ACCAAAAATTAGCTGTTTGCATTGAAACAATTATTTCACCTTTTTCCTCCATACAAGAATAAAAG
          1 ACCAAAAATTAGCTGTTTGCATTGAAACAATTATTTCACCTTTTTCCTCCATACAAGAATAAAAG

                                                                             
         66 TTATTCTGTTACCACTAGATAATAGTAATGTGACACATCAATAGCTTGGTTAGATAAATGTGCTT
         66 TTATTCTGTTACCACTAGATAATAGTAATGTGACACATCAATAGCTTGGTTAGATAAATGTGCTT

                                                                             
        131 TAGAAGCTGAATTAGTTCCGAGTGTCTTCAGTAACTATTAGGTCATTGTCTAATTATCATTAGTA
        131 TAGAAGCTGAATTAGTTCCGAGTGTCTTCAGTAACTATTAGGTCATTGTCTAATTATCATTAGTA

                                                                             
        196 ATTTCTGTTATTGTTCACATCACTTTGAACGGACATGAAGTATAATCCTTTATGGTTTAATCAAT
        196 ATTTCTGTTATTGTTCACATCACTTTGAACGGACATGAAGTATAATCCTTTATGGTTTAATCAAT

                                                                             
        261 CTATGGCATGGCTTTTTTGTAATCTCAAAAACTGCACGTCATCCAACTTTCTCCTTAAATCTCAC
        261 CTATGGCATGGCTTTTTTGTAATCTCAAAAACTGCACGTCATCCAACTTTCTCCTTAAATCTCAC

                                                                             
        326 CTAAAATATAACATTTGCCAACTTAACCAATGAGCCACAAAGCAAAATAAATCTGTCCTACATAA
        326 CTAAAATATAACATTTGCCAACTTAACCAATGAGCCACAAAGCAAAATAAATCTGTCCTACATAA

                                                                             
        391 CTACTACAACATCCCTACAGCTCACTTTTGATCAATATTTGTTATGCATAAACATATAACTGCAC
        391 CTACTACAACATCCCTACAGCTCACTTTTGATCAATATTTGTTATGCATAAACATATAACTGCAC

                                                                             
        456 GTGTGTCTCTGAGAGAGACATCACGAAAATATATCATTTTACAAACACAAGAATCTCAAATTTTA
        456 GTGTGTCTCTGAGAGAGACATCACGAAAATATATCATTTTACAAACACAAGAATCTCAAATTTTA

                                
        521 TTTGGAATCTACCACACCCC
        521 TTTGGAATCTACCACACCCC

                                                                             
        541 ACCAAAAATTAGCTGTTTGCATTGAAACAATTATTTCACCTTTTTCCTCCATACAAGAATAAAAG
          1 ACCAAAAATTAGCTGTTTGCATTGAAACAATTATTTCACCTTTTTCCTCCATACAAGAATAAAAG

                                                                             
        606 TTATTCTGTTACCACTAGATAATAGTAATGTGACACATCAATAGCTTGGTTAGATAAATGTGCTT
         66 TTATTCTGTTACCACTAGATAATAGTAATGTGACACATCAATAGCTTGGTTAGATAAATGTGCTT

                                                                             
        671 TAGAAGCTGAATTAGTTCCGAGTGTCTTCAGTAACTATTAGGTCATTGTCTAATTATCATTAGTA
        131 TAGAAGCTGAATTAGTTCCGAGTGTCTTCAGTAACTATTAGGTCATTGTCTAATTATCATTAGTA

                                                        *                    
        736 ATTTCTGTTATTGTTCACATCACTTTGAACGGACATGAAGTATAGTCCTTTATGGTTTAATCAAT
        196 ATTTCTGTTATTGTTCACATCACTTTGAACGGACATGAAGTATAATCCTTTATGGTTTAATCAAT

                                                                             
        801 CTATGGCATGGCTTTTTTGTAATCTCAAAAACTGCACGTCATCCAACTTTCTCCTTAAATCTCAC
        261 CTATGGCATGGCTTTTTTGTAATCTCAAAAACTGCACGTCATCCAACTTTCTCCTTAAATCTCAC

                                                                             
        866 CTAAAATATAACATTTGCCAACTTAACCAATGAGCCACAAAGCAAAATAAATCTGTCCTACATAA
        326 CTAAAATATAACATTTGCCAACTTAACCAATGAGCCACAAAGCAAAATAAATCTGTCCTACATAA

                                                                             
        931 CTACTACAACATCCCTACAGCTCACTTTTGATCAATATTTGTTATGCATAAACATATAACTGCAC
        391 CTACTACAACATCCCTACAGCTCACTTTTGATCAATATTTGTTATGCATAAACATATAACTGCAC

                                    
        996 GTGTGTCTCTGAGAGAGACATCAC
        456 GTGTGTCTCTGAGAGAGACATCAC


Statistics
Matches: 478,  Mismatches: 1, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
 540  478  1.00

ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34


Consensus pattern (540 bp):   
ACCAAAAATTAGCTGTTTGCATTGAAACAATTATTTCACCTTTTTCCTCCATACAAGAATAAAAG
TTATTCTGTTACCACTAGATAATAGTAATGTGACACATCAATAGCTTGGTTAGATAAATGTGCTT
TAGAAGCTGAATTAGTTCCGAGTGTCTTCAGTAACTATTAGGTCATTGTCTAATTATCATTAGTA
ATTTCTGTTATTGTTCACATCACTTTGAACGGACATGAAGTATAATCCTTTATGGTTTAATCAAT
CTATGGCATGGCTTTTTTGTAATCTCAAAAACTGCACGTCATCCAACTTTCTCCTTAAATCTCAC
CTAAAATATAACATTTGCCAACTTAACCAATGAGCCACAAAGCAAAATAAATCTGTCCTACATAA
CTACTACAACATCCCTACAGCTCACTTTTGATCAATATTTGTTATGCATAAACATATAACTGCAC
GTGTGTCTCTGAGAGAGACATCACGAAAATATATCATTTTACAAACACAAGAATCTCAAATTTTA
TTTGGAATCTACCACACCCC
Done.