Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011883.1 Corchorus capsularis cultivar CVL-1 contig11904, 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: 10072
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:2554 original size:22 final size:24

Alignment explanation


    Indices: 2502--2563  Score: 65
    Period size: 22  Copynumber: 2.6  Consensus size: 24

       2492 AATTAAATCT

                 *                   
       2502 AACAAACAAGTAAAATTACTAAGAA
          1 AACAATCAAGTAAAATTAC-AAGAA

             *                      
       2527 AGCAATCAAG-AAAATTA-AAGAA
          1 AACAATCAAGTAAAATTACAAGAA

                  *  *     
       2549 AACAATTAATTAAAA
          1 AACAATCAAGTAAAA

       2564 AACAGTGAAT


Statistics
Matches: 31,  Mismatches: 5, Indels: 4
        0.77            0.12        0.10

Matches are distributed among these distances:
  22   12  0.39
  23    4  0.13
  24    7  0.23
  25    8  0.26

ACGTcount: A:0.65, C:0.10, G:0.08, T:0.18


Consensus pattern (24 bp):   
AACAATCAAGTAAAATTACAAGAA

Found at i:3871 original size:19 final size:18

Alignment explanation


    Indices: 3838--3874  Score: 56
    Period size: 19  Copynumber: 2.0  Consensus size: 18

       3828 TTGAAATAAT

                              
       3838 TCTTCAATGATCTTCAAG
          1 TCTTCAATGATCTTCAAG

                     *         
       3856 TCTTCAAATTATCTTCAAG
          1 TCTTC-AATGATCTTCAAG

       3875 AAATCTTCAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  18    5  0.29
  19   12  0.71

ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41


Consensus pattern (18 bp):   
TCTTCAATGATCTTCAAG
Done.