Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009581.1 Corchorus olitorius cultivar O-4 contig09613, 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: 2313
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33


Found at i:2105 original size:29 final size:30

Alignment explanation


    Indices: 2045--2124  Score: 99
    Period size: 29  Copynumber: 2.7  Consensus size: 30

       2035 GCTAAATACC

                 *                    *    
       2045 CAAAAAAATCCCTTATGTTTTGCTTTTGGGA
          1 CAAAATAATCCCTTATGTTTT-CTTTCGGGA

                     *                    
       2076 CAAAATAATTCCTTATGTTTT-TTTCGGGA
          1 CAAAATAATCCCTTATGTTTTCTTTCGGGA

                *          *    
       2105 CAAATTAATCCCTTACGTTT
          1 CAAAATAATCCCTTATGTTT

       2125 CAAAAATGAG


Statistics
Matches: 43,  Mismatches: 6, Indels: 2
        0.84            0.12        0.04

Matches are distributed among these distances:
  29   24  0.56
  31   19  0.44

ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41


Consensus pattern (30 bp):   
CAAAATAATCCCTTATGTTTTCTTTCGGGA

Found at i:2310 original size:32 final size:32

Alignment explanation


    Indices: 2248--2313  Score: 89
    Period size: 31  Copynumber: 2.1  Consensus size: 32

       2238 AAGGGACTGA

                                     *      
       2248 TTTGTCCCAAAAGAAAAACATAAGGGATTTTT
          1 TTTGTCCCAAAAGAAAAACATAAGGAATTTTT

                         *    *              
       2280 TTTG-CCCAAAAGGAAAATATAAGAGAATTTTT
          1 TTTGTCCCAAAAGAAAAACATAAG-GAATTTTT

              
       2312 TT
          1 TT


Statistics
Matches: 30,  Mismatches: 3, Indels: 2
        0.86            0.09        0.06

Matches are distributed among these distances:
  31   17  0.57
  32   13  0.43

ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33


Consensus pattern (32 bp):   
TTTGTCCCAAAAGAAAAACATAAGGAATTTTT
Done.