Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002936.1 Corchorus capsularis cultivar CVL-1 contig02944, 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, 931

Length: 1552
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27


Found at i:740 original size:30 final size:29

Alignment explanation


    Indices: 638--746  Score: 110
    Period size: 29  Copynumber: 3.7  Consensus size: 29

        628 ACTAAACAAC

                               ** *     *  
        638 CGTTTTGCCCCCTGAACTTGTAGCGTTTAGA
          1 CGTTTTGCCCCCTGAACTTCAATC--TTGGA

                        *                
        669 CGTTTTGCCCCCCGAACTTCAATCTTGGA
          1 CGTTTTGCCCCCTGAACTTCAATCTTGGA

             *     *               *      
        698 CATTTTGTCCCCTGAACTTCAATTTTGGGA
          1 CGTTTTGCCCCCTGAACTTCAATCTT-GGA

                         *     
        728 CGTTTTGCCCCCTCAACTT
          1 CGTTTTGCCCCCTGAACTT

        747 AACGGCTCCG


Statistics
Matches: 65,  Mismatches: 12, Indels: 3
        0.81            0.15        0.04

Matches are distributed among these distances:
  29   26  0.40
  30   19  0.29
  31   20  0.31

ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36


Consensus pattern (29 bp):   
CGTTTTGCCCCCTGAACTTCAATCTTGGA

Found at i:972 original size:30 final size:29

Alignment explanation


    Indices: 938--1038  Score: 103
    Period size: 29  Copynumber: 3.4  Consensus size: 29

        928 CGTTAGGTTG

                                          
        938 AGGGGGCAAAACGTCCCAAAATTAAAGTTC
          1 AGGGGGCAAAACGT-CCAAAATTAAAGTTC

                  *    *      *   *      
        968 AGGGGGTAAAATGTCCAAGATTGAAGTTC
          1 AGGGGGCAAAACGTCCAAAATTAAAGTTC

                        *  *    **         
        997 AGGGGGCAAAACATCTAAACGCTACAAGTTC
          1 AGGGGGCAAAACGTCCAAA-ATTA-AAGTTC

                       
       1028 AGGGGGCAAAA
          1 AGGGGGCAAAA

       1039 TGGTAGATTA


Statistics
Matches: 57,  Mismatches: 12, Indels: 3
        0.79            0.17        0.04

Matches are distributed among these distances:
  29   27  0.47
  30   13  0.23
  31   17  0.30

ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17


Consensus pattern (29 bp):   
AGGGGGCAAAACGTCCAAAATTAAAGTTC

Done.