Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012271.1 Corchorus olitorius cultivar O-4 contig12304, 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: 13875
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26


Found at i:503 original size:32 final size:30

Alignment explanation


    Indices: 449--541  Score: 96
    Period size: 31  Copynumber: 3.0  Consensus size: 30

        439 AAACCCCTTT

                *            *            *
        449 TAAGTAAACTCCAAAAGAAGATTTTGGAAAG
          1 TAAGGAAA-TCCAAAAGGAGATTTTGGAAAA

                 **                          
        480 TAAGGTTATCCCCAAAAGGAGATTTTGGAAAAA
          1 TAAGGAAAT--CCAAAAGGAGATTTTGG-AAAA

                     *                   
        513 TAAGGAAATTCAAAAGGAGATTTTGGAAA
          1 TAAGGAAATCCAAAAGGAGATTTTGGAAA

        542 TTAGTAAAAT


Statistics
Matches: 51,  Mismatches: 8, Indels: 7
        0.77            0.12        0.11

Matches are distributed among these distances:
  30    4  0.08
  31   21  0.41
  32   16  0.31
  33   10  0.20

ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24


Consensus pattern (30 bp):   
TAAGGAAATCCAAAAGGAGATTTTGGAAAA

Found at i:11024 original size:19 final size:20

Alignment explanation


    Indices: 10987--11025  Score: 53
    Period size: 19  Copynumber: 2.0  Consensus size: 20

      10977 AGCAATTTTG

                        *       
      10987 CAGGGAGATCAAGACACAAA
          1 CAGGGAGATCAACACACAAA

                          *     
      11007 CAGGG-GATCAACATACAAA
          1 CAGGGAGATCAACACACAAA

      11026 TGACCAAAGG


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  19   12  0.71
  20    5  0.29

ACGTcount: A:0.49, C:0.21, G:0.23, T:0.08


Consensus pattern (20 bp):   
CAGGGAGATCAACACACAAA
Done.