Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005445.1 Corchorus capsularis cultivar CVL-1 contig05463, 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: 11874
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30


Found at i:231 original size:2 final size:2

Alignment explanation


    Indices: 219--263  Score: 63
    Period size: 2  Copynumber: 22.5  Consensus size: 2

        209 AATTCAATGA

                  *               *           *                           
        219 AT AT TT AT AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                
        261 AT A
          1 AT A

        264 CTCAAGTGGG


Statistics
Matches: 37,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   2   37  1.00

ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47


Consensus pattern (2 bp):   
AT

Found at i:1148 original size:2 final size:2

Alignment explanation


    Indices: 1141--1196  Score: 105
    Period size: 2  Copynumber: 28.5  Consensus size: 2

       1131 AAGATGATTA

                                                                          
       1141 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                                  
       1183 AG AG AG AG AG -G AG A
          1 AG AG AG AG AG AG AG A

       1197 TGACAACTCG


Statistics
Matches: 53,  Mismatches: 0, Indels: 2
        0.96            0.00        0.04

Matches are distributed among these distances:
   1    1  0.02
   2   52  0.98

ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00


Consensus pattern (2 bp):   
AG

Done.