Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023908.1 Corchorus olitorius cultivar O-4 contig23941, 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: 12503
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31


Found at i:685 original size:15 final size:16

Alignment explanation


    Indices: 661--700  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

        651 AGAGGTTGAA

                 *          
        661 AGAAAGCAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
        676 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
        692 AGAAAACAA
          1 AGAAAACAA

        701 AGCAAAGTAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15


Consensus pattern (16 bp):   
AGAAAACAATTAAACT

Found at i:11488 original size:35 final size:35

Alignment explanation


    Indices: 11438--11530  Score: 152
    Period size: 35  Copynumber: 2.7  Consensus size: 35

      11428 GAATTTCATC

                     *                         
      11438 AAGT-TTTTTAATTGGGAAAGTTCACACCAGTTTT
          1 AAGTCTTTTAAATTGGGAAAGTTCACACCAGTTTT

                                    *          
      11472 AAGTCTTTTAAATTGGGAAAGTTCCCACCAGTTTT
          1 AAGTCTTTTAAATTGGGAAAGTTCACACCAGTTTT

                        *           
      11507 AAGTCTTTTAAAATGGGAAAGTTC
          1 AAGTCTTTTAAATTGGGAAAGTTC

      11531 CCATCAAAAG


Statistics
Matches: 55,  Mismatches: 3, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  34    4  0.07
  35   51  0.93

ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38


Consensus pattern (35 bp):   
AAGTCTTTTAAATTGGGAAAGTTCACACCAGTTTT

Done.