Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012483.1 Corchorus capsularis cultivar CVL-1 contig12504, 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: 3935
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31


Found at i:546 original size:12 final size:13

Alignment explanation


    Indices: 521--554  Score: 52
    Period size: 12  Copynumber: 2.7  Consensus size: 13

        511 ATAATTATTG

                         
        521 TTTGCTTTATTAA
          1 TTTGCTTTATTAA

                         
        534 TTTGCTTTA-TAA
          1 TTTGCTTTATTAA

             *       
        546 TCTGCTTTA
          1 TTTGCTTTA

        555 GATTTAGATT


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  12   11  0.55
  13    9  0.45

ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59


Consensus pattern (13 bp):   
TTTGCTTTATTAA

Found at i:580 original size:28 final size:24

Alignment explanation


    Indices: 548--606  Score: 64
    Period size: 28  Copynumber: 2.3  Consensus size: 24

        538 CTTTATAATC

                                        
        548 TGCTTTAGATTTAGATTTAGATTTGCTT
          1 TGCTTTAGATTTAG-TTTA-A-TTG-TT

                   **               
        576 TGCTTTATTTTTAGTTTAATTGTT
          1 TGCTTTAGATTTAGTTTAATTGTT

                   
        600 TGCTTTA
          1 TGCTTTA

        607 TAATTGTTAC


Statistics
Matches: 29,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  24    9  0.31
  25    3  0.10
  26    1  0.03
  27    4  0.14
  28   12  0.41

ACGTcount: A:0.19, C:0.07, G:0.15, T:0.59


Consensus pattern (24 bp):   
TGCTTTAGATTTAGTTTAATTGTT
Done.