Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014015.1 Kokia drynarioides strain JFW-HI SEQ_129046, 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: 3200
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37


Found at i:883 original size:51 final size:51

Alignment explanation


    Indices: 828--946  Score: 112
    Period size: 51  Copynumber: 2.3  Consensus size: 51

        818 TGCATAATTG

                                                     * *       
        828 TTGATAAAATGTGTAAATATTGCAGGATAAATTTGTTAAATTAGGATCAAA
          1 TTGATAAAATGTGTAAATATTGCAGGATAAATTTGTTAAATCAAGATCAAA

                 **      *    *   **  *  *        *            
        879 TTGATGGAATGTGAAAATGTTGTGGGTTATATTTGTTATATCAAGATCAAA
          1 TTGATAAAATGTGTAAATATTGCAGGATAAATTTGTTAAATCAAGATCAAA

            * * *            
        930 CTAACAAAATGTGTAAA
          1 TTGATAAAATGTGTAAA

        947 CTTTGAAGGT


Statistics
Matches: 51,  Mismatches: 17, Indels: 0
        0.75            0.25        0.00

Matches are distributed among these distances:
  51   51  1.00

ACGTcount: A:0.40, C:0.05, G:0.19, T:0.35


Consensus pattern (51 bp):   
TTGATAAAATGTGTAAATATTGCAGGATAAATTTGTTAAATCAAGATCAAA

Found at i:3040 original size:51 final size:50

Alignment explanation


    Indices: 2935--3050  Score: 130
    Period size: 51  Copynumber: 2.3  Consensus size: 50

       2925 AAGTATTGCT

                    *        * *                               
       2935 GGTTAAATATGTTAAATCATGACCAAATTGATGAAATGTGTTAATGTTATG
          1 GGTTAAATTTGTTAAATAAAGACCAAATTGATGAAATGTG-TAATGTTATG

                                  *                               
       2986 GGTTAAATTTGTTAAATAAAGATCAAATTGATAGAATATGTG-AACT-TTGA-G
          1 GGTTAAATTTGTTAAATAAAGACCAAATTGAT-GAA-ATGTGTAA-TGTT-ATG

                          
       3037 GGTTAAATTTGTTA
          1 GGTTAAATTTGTTA

       3051 TTATACCAAG


Statistics
Matches: 57,  Mismatches: 4, Indels: 8
        0.83            0.06        0.12

Matches are distributed among these distances:
  51   47  0.82
  52    5  0.09
  53    5  0.09

ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38


Consensus pattern (50 bp):   
GGTTAAATTTGTTAAATAAAGACCAAATTGATGAAATGTGTAATGTTATG
Done.