Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003654.1 Corchorus capsularis cultivar CVL-1 contig03662, 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: 2005
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38


Found at i:849 original size:28 final size:28

Alignment explanation


    Indices: 795--849  Score: 76
    Period size: 28  Copynumber: 2.0  Consensus size: 28

        785 AGTAAGTATA

                                 **     
        795 AAAATTAAGGATATTAATTGTGGTAATT
          1 AAAATTAAGGATATTAATTGTACTAATT

                                        
        823 AAAATTAAGGATACTTAA-TGTACTAAT
          1 AAAATTAAGGATA-TTAATTGTACTAAT

        850 ACATGTATTA


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  28   20  0.83
  29    4  0.17

ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36


Consensus pattern (28 bp):   
AAAATTAAGGATATTAATTGTACTAATT

Found at i:1568 original size:22 final size:21

Alignment explanation


    Indices: 1520--1563  Score: 61
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1510 TATAAAGCTT

                             *   
       1520 TATTTTAGTAATTGTATTAAG
          1 TATTTTAGTAATTGTATCAAG

                                   
       1541 TATTTTAGTAATTTGTTATCAAG
          1 TATTTTAGTAA-TTG-TATCAAG

       1564 CTTTTCATTA


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  21   11  0.55
  22    3  0.15
  23    6  0.30

ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52


Consensus pattern (21 bp):   
TATTTTAGTAATTGTATCAAG
Done.