Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001437.1 Corchorus capsularis cultivar CVL-1 contig01437, 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: 6703
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36


Found at i:3673 original size:15 final size:16

Alignment explanation


    Indices: 3653--3690  Score: 51
    Period size: 16  Copynumber: 2.4  Consensus size: 16

       3643 TTTACTACCT

                  *         
       3653 TTTTATGAT-ATCAAA
          1 TTTTATAATGATCAAA

                      *     
       3668 TTTTATAATGCTCAAA
          1 TTTTATAATGATCAAA

                   
       3684 TTTTATA
          1 TTTTATA

       3691 TTACTATGTA


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

Matches are distributed among these distances:
  15    8  0.40
  16   12  0.60

ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50


Consensus pattern (16 bp):   
TTTTATAATGATCAAA

Found at i:4890 original size:23 final size:24

Alignment explanation


    Indices: 4837--4888  Score: 61
    Period size: 26  Copynumber: 2.1  Consensus size: 24

       4827 CTTTTGTGAG

                            *         
       4837 AAATAATAATATAATTTTTTTGGCCA
          1 AAATAATAATATAATTATTTT-G-CA

                                     
       4863 AAATAATAATATAATTAATTTT-CA
          1 AAATAATAATATAATT-ATTTTGCA

              
       4887 AA
          1 AA

       4889 TATGCATTGT


Statistics
Matches: 24,  Mismatches: 1, Indels: 4
        0.83            0.03        0.14

Matches are distributed among these distances:
  24    4  0.17
  26   16  0.67
  27    4  0.17

ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40


Consensus pattern (24 bp):   
AAATAATAATATAATTATTTTGCA
Done.