Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000090.1 Corchorus capsularis cultivar CVL-1 contig00090, 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: 2972
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38


Found at i:459 original size:28 final size:28

Alignment explanation


    Indices: 423--481  Score: 77
    Period size: 28  Copynumber: 2.1  Consensus size: 28

        413 AGTTTTTTTA

                       *                  
        423 TTAATTAAATATATA-TACATATATAATTT
          1 TTAATTAAATAAATAGTACATA-AT-ATTT

                                        
        452 TTAA-TAAATAAATAGTACATAATATTT
          1 TTAATTAAATAAATAGTACATAATATTT

               
        479 TTA
          1 TTA

        482 TACTACTAAT


Statistics
Matches: 28,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  27    7  0.25
  28   11  0.39
  29   10  0.36

ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46


Consensus pattern (28 bp):   
TTAATTAAATAAATAGTACATAATATTT

Found at i:1563 original size:29 final size:30

Alignment explanation


    Indices: 1519--1575  Score: 98
    Period size: 29  Copynumber: 1.9  Consensus size: 30

       1509 TAATAATTTC

                    *                     
       1519 TCTAAAATTAAAGATTGATATAAGTTTGTT
          1 TCTAAAATAAAAGATTGATATAAGTTTGTT

                                        
       1549 TCTAAAA-AAAAGATTGATATAAGTTTG
          1 TCTAAAATAAAAGATTGATATAAGTTTG

       1576 ATTATTGTTT


Statistics
Matches: 26,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  29   19  0.73
  30    7  0.27

ACGTcount: A:0.44, C:0.04, G:0.14, T:0.39


Consensus pattern (30 bp):   
TCTAAAATAAAAGATTGATATAAGTTTGTT
Done.