Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005288.1 Corchorus capsularis cultivar CVL-1 contig05306, 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, 844

Length: 1407
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32


Found at i:694 original size:23 final size:22

Alignment explanation


    Indices: 664--719  Score: 67
    Period size: 22  Copynumber: 2.5  Consensus size: 22

        654 TTTTTTCGCA

                                   
        664 CAATTTTTTTTAATCGCAAAAAG
          1 CAATTTTTTTTAA-CGCAAAAAG

                       * * *    * 
        687 CAATTTTTTTTTAGGGAAAACG
          1 CAATTTTTTTTAACGCAAAAAG

                       
        709 CAATTTTTTTT
          1 CAATTTTTTTT

        720 TTATAGAAAA


Statistics
Matches: 29,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  22   17  0.59
  23   12  0.41

ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46


Consensus pattern (22 bp):   
CAATTTTTTTTAACGCAAAAAG

Found at i:728 original size:23 final size:22

Alignment explanation


    Indices: 664--730  Score: 71
    Period size: 23  Copynumber: 3.0  Consensus size: 22

        654 TTTTTTCGCA

                       *  *        
        664 CAATTTTTTTTAATCGCAAAAAG
          1 CAATTTTTTTTTATAG-AAAAAG

                         **     * 
        687 CAATTTTTTTTTAGGGAAAACG
          1 CAATTTTTTTTTATAGAAAAAG

                                  
        709 CAATTTTTTTTTTATAGAAAAA
          1 CAA-TTTTTTTTTATAGAAAAA

        731 ACGCAAAAAC


Statistics
Matches: 36,  Mismatches: 7, Indels: 2
        0.80            0.16        0.04

Matches are distributed among these distances:
  22    8  0.22
  23   28  0.78

ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43


Consensus pattern (22 bp):   
CAATTTTTTTTTATAGAAAAAG
Done.