Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001453.1 Corchorus capsularis cultivar CVL-1 contig01453, 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: 7101
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31


Found at i:3473 original size:2 final size:2

Alignment explanation


    Indices: 3466--3502  Score: 65
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       3456 AGGACTTCAC

                                                                  
       3466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT

       3503 TATTTTTAAC


Statistics
Matches: 34,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   2   32  0.94
   3    2  0.06

ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Found at i:6386 original size:2 final size:2

Alignment explanation


    Indices: 6381--6434  Score: 72
    Period size: 2  Copynumber: 26.5  Consensus size: 2

       6371 TATATTATGG

                                     *              *                      
       6381 TA TA TA TA TA TA TA TA TG TA GTA TA TA CA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA

                     *      
       6424 TA TA TA CA TA T
          1 TA TA TA TA TA T

       6435 TATTTGAATA


Statistics
Matches: 45,  Mismatches: 6, Indels: 2
        0.85            0.11        0.04

Matches are distributed among these distances:
   2   43  0.96
   3    2  0.04

ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46


Consensus pattern (2 bp):   
TA

Done.