Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003396.1 Corchorus capsularis cultivar CVL-1 contig03404, 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, 731

Length: 1219
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42


Found at i:477 original size:62 final size:63

Alignment explanation


    Indices: 322--614  Score: 319
    Period size: 58  Copynumber: 4.8  Consensus size: 63

        312 CTATTTGAGA

                      *                                                    * 
        322 GTTTCATTCTTAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCAT
          1 GTTTCATT-TCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTC-TGTTTCAATTCCAAAATCTT

                             *                                              
        387 G-TTCATTTCAAATCCTACTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCC-AAATCTT
          1 GTTTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTC-TGTTTCAATTCCAAAATCTT

                                *                         *        *     * 
        449 G-TTCATTTCAAATCCTGCTCGAGGTCTCTAGTCGAGAG----T-TATCAATT-CTAAATCCT
          1 GTTTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTGTTTCAATTCCAAAATCTT

                              *  *          * *                         *   
        505 GTTTCATTTTCAAATCCTACTCGAGGTCTCTAATTGAGAG----T-TTTCAA-TCCAAAACCTT
          1 GTTTCA-TTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTGTTTCAATTCCAAAATCTT

                     *                      *                   
        563 GTTTCATTTTAAATCCTGCTTGAGGTCTCTAGCCGAGAGTTTCTGTTTCAAT
          1 GTTTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTGTTTCAAT

        615 CTAAAGTCTT


Statistics
Matches: 198,  Mismatches: 20, Indels: 22
        0.82            0.08        0.09

Matches are distributed among these distances:
  55    1  0.01
  56   14  0.07
  57   33  0.17
  58   48  0.24
  61    1  0.01
  62   48  0.24
  63   46  0.23
  64    6  0.03
  65    1  0.01

ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40


Consensus pattern (63 bp):   
GTTTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTGTTTCAATTCCAAAATCTT

Done.