Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012210.1 Corchorus capsularis cultivar CVL-1 contig12231, 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: 3011
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36


Found at i:437 original size:26 final size:27

Alignment explanation


    Indices: 387--437  Score: 68
    Period size: 26  Copynumber: 1.9  Consensus size: 27

        377 TGTACTTTTT

                              * *      
        387 CTACTTAAGGGCAAAATAGTCATTTCG
          1 CTACTTAAGGGCAAAATAATAATTTCG

                       *             
        414 CTAC-TAAGGGTAAAATAATAATTT
          1 CTACTTAAGGGCAAAATAATAATTT

        438 TACCATCATC


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  26   17  0.81
  27    4  0.19

ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31


Consensus pattern (27 bp):   
CTACTTAAGGGCAAAATAATAATTTCG

Found at i:775 original size:37 final size:37

Alignment explanation


    Indices: 693--776  Score: 107
    Period size: 37  Copynumber: 2.3  Consensus size: 37

        683 CCCAAACTTG

                      **                        *
        693 GCGCTGGGCCAAGCGCTGGCCCGCGCGCCAGGCCTGG
          1 GCGCTGGGCCTTGCGCTGGCCCGCGCGCCAGGCCTGA

                                         * *     
        730 GCGCTGGGCCTTGCGCTGGCCCGCGC-CCTGTCCTGA
          1 GCGCTGGGCCTTGCGCTGGCCCGCGCGCCAGGCCTGA

                       
        766 GCGCTTGGGCC
          1 GCGC-TGGGCC

        777 GCGCCAGGCC


Statistics
Matches: 41,  Mismatches: 5, Indels: 2
        0.85            0.10        0.04

Matches are distributed among these distances:
  36   11  0.27
  37   30  0.73

ACGTcount: A:0.05, C:0.40, G:0.40, T:0.14


Consensus pattern (37 bp):   
GCGCTGGGCCTTGCGCTGGCCCGCGCGCCAGGCCTGA
Done.