Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013958.1 Corchorus capsularis cultivar CVL-1 contig13979, 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: 6018
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32


Found at i:981 original size:2 final size:2

Alignment explanation


    Indices: 974--1043  Score: 104
    Period size: 2  Copynumber: 33.0  Consensus size: 2

        964 TACAGTTTTA

                                                                          
        974 AT AT AT AT AT AT AT AT AT AT AT GAT AT AT AT GAT AT GAT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT -AT AT AT

                                                   
       1017 AT GAT AT AT AT AT AT AT AT AT AT AT AT
          1 AT -AT AT AT AT AT AT AT AT AT AT AT AT

       1044 GATTGCCTCC


Statistics
Matches: 64,  Mismatches: 0, Indels: 8
        0.89            0.00        0.11

Matches are distributed among these distances:
   2   56  0.88
   3    8  0.12

ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47


Consensus pattern (2 bp):   
AT

Found at i:1665 original size:12 final size:12

Alignment explanation


    Indices: 1648--1684  Score: 53
    Period size: 12  Copynumber: 3.3  Consensus size: 12

       1638 ATCAACCCTA

                        
       1648 AACTGAAAACCG
          1 AACTGAAAACCG

                        
       1660 AACTGAAAACCG
          1 AACTGAAAACCG

                        
       1672 -AC--AAAACCG
          1 AACTGAAAACCG

                
       1681 AACT
          1 AACT

       1685 TATCGGTTTC


Statistics
Matches: 23,  Mismatches: 0, Indels: 5
        0.82            0.00        0.18

Matches are distributed among these distances:
   9    7  0.30
  10    2  0.09
  11    2  0.09
  12   12  0.52

ACGTcount: A:0.51, C:0.27, G:0.14, T:0.08


Consensus pattern (12 bp):   
AACTGAAAACCG
Done.