Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010398.1 Corchorus capsularis cultivar CVL-1 contig10419, 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: 12872
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37


Found at i:4831 original size:30 final size:31

Alignment explanation


    Indices: 4770--4844  Score: 98
    Period size: 30  Copynumber: 2.5  Consensus size: 31

       4760 AAAAAGAGTT

                              *   *        
       4770 AGGGACCCAATTGCTCAATTAACTCCACTTC
          1 AGGGACCCAATTGCTCAACTAAATCCACTTC

                  *                 *      
       4801 AGGGACTCAATTGCTC-ACTAAATTCACTTC
          1 AGGGACCCAATTGCTCAACTAAATCCACTTC

                     *    
       4831 AGGGACCCATTTGC
          1 AGGGACCCAATTGC

       4845 ACATTTGCCC


Statistics
Matches: 38,  Mismatches: 6, Indels: 1
        0.84            0.13        0.02

Matches are distributed among these distances:
  30   23  0.61
  31   15  0.39

ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27


Consensus pattern (31 bp):   
AGGGACCCAATTGCTCAACTAAATCCACTTC

Found at i:5561 original size:25 final size:26

Alignment explanation


    Indices: 5507--5564  Score: 66
    Period size: 24  Copynumber: 2.3  Consensus size: 26

       5497 TTCTTCTTTC

                           *         *
       5507 TTTTTTTTTGAAAAATAAGAAAATGG
          1 TTTTTTTTTGAAAAAGAAGAAAATGA

                            *         
       5533 TTTTTTTTT-AAAAAGGA-AAAATGA
          1 TTTTTTTTTGAAAAAGAAGAAAATGA

            *       
       5557 ATTTTTTT
          1 TTTTTTTT

       5565 ATTTTTATTT


Statistics
Matches: 28,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  24   13  0.46
  25    6  0.21
  26    9  0.32

ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48


Consensus pattern (26 bp):   
TTTTTTTTTGAAAAAGAAGAAAATGA
Done.