Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007046.1 Kokia drynarioides strain JFW-HI SEQ_121654, 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: 7169
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33


Found at i:613 original size:51 final size:51

Alignment explanation


    Indices: 494--731  Score: 273
    Period size: 51  Copynumber: 4.6  Consensus size: 51

        484 TTTCATTTAA

                                              ** *    *          *
        494 TACTCACGATGACA-TATAGTCATCGGACCTCTTGTTTCGTATAGGAATTCATG
          1 TACTCACGATGACACT-TAGTCATCGGACCT-TTAATCCGTAAAGG-ATTCATT

                                *          **               *   
        547 TACTCACGATGACACTTAGTTATCGGACCTCACAATCCGT-AAGGATTTATT
          1 TACTCACGATGACACTTAGTCATCGGACCT-TTAATCCGTAAAGGATTCATT

                                *   *           *              
        598 TACTCACGATGACACTTAGTAATCAGACCTTTAATCTGTAAAGGATTCATT
          1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT

                *                   *                          
        649 TACTTACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
          1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT

            *              *    *           
        700 AACTCACGATGACACCTAGTTATCGGACCTTT
          1 TACTCACGATGACACTTAGTCATCGGACCTTT

        732 TCGTTTACAG


Statistics
Matches: 160,  Mismatches: 23, Indels: 6
        0.85            0.12        0.03

Matches are distributed among these distances:
  50    6  0.04
  51  118  0.74
  52    3  0.02
  53   32  0.20
  54    1  0.01

ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32


Consensus pattern (51 bp):   
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT

Found at i:6119 original size:17 final size:16

Alignment explanation


    Indices: 6092--6142  Score: 57
    Period size: 17  Copynumber: 3.1  Consensus size: 16

       6082 GTTAGTGCAC

                  *         
       6092 ATTGTCGTTGCTTTTT
          1 ATTGTCATTGCTTTTT

                            * 
       6108 ATTTGTCATTGCATTTCT
          1 A-TTGTCATTGC-TTTTT

                       *    
       6126 ATTGTCATTGCATTTT
          1 ATTGTCATTGCTTTTT

             
       6142 A
          1 A

       6143 ATGTTAGTGC


Statistics
Matches: 29,  Mismatches: 4, Indels: 4
        0.78            0.11        0.11

Matches are distributed among these distances:
  16    5  0.17
  17   19  0.66
  18    5  0.17

ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57


Consensus pattern (16 bp):   
ATTGTCATTGCTTTTT
Done.