Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013558.1 Corchorus capsularis cultivar CVL-1 contig13579, 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: 9517
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:6544 original size:23 final size:23

Alignment explanation


    Indices: 6495--6557  Score: 67
    Period size: 23  Copynumber: 2.7  Consensus size: 23

       6485 GTGGCCGGTT

                  *               *
       6495 GTGGCCTGGCATGGCCGAGTCAT
          1 GTGGCCGGGCATGGCCGAGTCAC

                                  * 
       6518 GTGGCCGGGCATGGCC-ATGTCGC
          1 GTGGCCGGGCATGGCCGA-GTCAC

                              
       6541 GTGGCCGGTG-ATGGCCG
          1 GTGGCCGG-GCATGGCCG

       6558 GGTATCTCCA


Statistics
Matches: 34,  Mismatches: 3, Indels: 5
        0.81            0.07        0.12

Matches are distributed among these distances:
  22    1  0.03
  23   32  0.94
  24    1  0.03

ACGTcount: A:0.10, C:0.27, G:0.44, T:0.19


Consensus pattern (23 bp):   
GTGGCCGGGCATGGCCGAGTCAC

Found at i:6556 original size:33 final size:32

Alignment explanation


    Indices: 6517--6615  Score: 117
    Period size: 33  Copynumber: 3.0  Consensus size: 32

       6507 GGCCGAGTCA

                         **   *             
       6517 TGTGGCCGGGCATGGCCATGTCGCGTGGCCGG
          1 TGTGGCCGGGCATCTCCAAGTCGCGTGGCCGG

                       *             *     * 
       6549 TGATGGCCGGGTATCTCCAAGTCGCTTGGCCAG
          1 TG-TGGCCGGGCATCTCCAAGTCGCGTGGCCGG

               *                             
       6582 TGTTGCGCGGGCATCTCCAAGTCGCGTGGCCGG
          1 TGTGGC-CGGGCATCTCCAAGTCGCGTGGCCGG

             
       6615 T
          1 T

       6616 CACAAGTGCT


Statistics
Matches: 55,  Mismatches: 10, Indels: 3
        0.81            0.15        0.04

Matches are distributed among these distances:
  32    5  0.09
  33   50  0.91

ACGTcount: A:0.10, C:0.28, G:0.39, T:0.22


Consensus pattern (32 bp):   
TGTGGCCGGGCATCTCCAAGTCGCGTGGCCGG
Done.