Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016252.1 Corchorus capsularis cultivar CVL-1 contig16273, 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: 1963
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26


Found at i:775 original size:33 final size:32

Alignment explanation


    Indices: 691--778  Score: 106
    Period size: 33  Copynumber: 2.7  Consensus size: 32

        681 AAAGGATCGT

                                             
        691 GTGGCCGGTTGTGGCCGGGCATGGCCGAGTCAA
          1 GTGGCCGG-TGTGGCCGGGCATGGCCGAGTCAA

                                            **
        724 GTGGCCGGGTGTGGCCGGGCATGGCC-ATGTCGC
          1 GTGGCC-GGTGTGGCCGGGCATGGCCGA-GTCAA

                         *        
        757 GTGGCCGGTGATGACCGGGCAT
          1 GTGGCCGGTG-TGGCCGGGCAT

        779 CTCAATGTCG


Statistics
Matches: 49,  Mismatches: 3, Indels: 6
        0.84            0.05        0.10

Matches are distributed among these distances:
  32    5  0.10
  33   42  0.86
  34    2  0.04

ACGTcount: A:0.10, C:0.25, G:0.47, T:0.18


Consensus pattern (32 bp):   
GTGGCCGGTGTGGCCGGGCATGGCCGAGTCAA

Found at i:787 original size:33 final size:31

Alignment explanation


    Indices: 725--831  Score: 90
    Period size: 33  Copynumber: 3.3  Consensus size: 31

        715 CCGAGTCAAG

                                 ** *       *
        725 TGGCCGGGTGTGGCCGGGCATGGCCATGTCGCG
          1 TGGCC-GGTGT-GCCGGGCATCTCAATGTCGCA

                                           * 
        758 TGGCCGGTGATGACCGGGCATCTCAATGTCGAA
          1 TGGCCGGTG-TG-CCGGGCATCTCAATGTCGCA

                                              
        791 TGGCCGGTGTTGCGCGGGCATCTCCAA-GTCGCA
          1 TGGCCGGTG-TGC-CGGGCATCT-CAATGTCGCA

               *    
        824 TGGTCGGT
          1 TGGCCGGT

        832 CACTTGTGCT


Statistics
Matches: 62,  Mismatches: 8, Indels: 8
        0.79            0.10        0.10

Matches are distributed among these distances:
  32    6  0.10
  33   53  0.85
  34    3  0.05

ACGTcount: A:0.12, C:0.26, G:0.40, T:0.21


Consensus pattern (31 bp):   
TGGCCGGTGTGCCGGGCATCTCAATGTCGCA
Done.