Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017669.1 Corchorus olitorius cultivar O-4 contig17702, 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: 16143
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38


Found at i:328 original size:29 final size:29

Alignment explanation


    Indices: 286--372  Score: 165
    Period size: 29  Copynumber: 3.0  Consensus size: 29

        276 ATTTTTAGTG

                                         
        286 GATATGGTGTTTGTTCAAGTCCTCATTAA
          1 GATATGGTGTTTGTTCAAGTCCTCATTAA

                              *          
        315 GATATGGTGTTTGTTCAAATCCTCATTAA
          1 GATATGGTGTTTGTTCAAGTCCTCATTAA

                                         
        344 GATATGGTGTTTGTTCAAGTCCTCATTAA
          1 GATATGGTGTTTGTTCAAGTCCTCATTAA

        373 TATAAATTTT


Statistics
Matches: 56,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  29   56  1.00

ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41


Consensus pattern (29 bp):   
GATATGGTGTTTGTTCAAGTCCTCATTAA

Found at i:1792 original size:21 final size:21

Alignment explanation


    Indices: 1766--1805  Score: 80
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1756 ATCAATTTTC

                                 
       1766 TATTTTTTTGGGGTGCAGATA
          1 TATTTTTTTGGGGTGCAGATA

                               
       1787 TATTTTTTTGGGGTGCAGA
          1 TATTTTTTTGGGGTGCAGA

       1806 CGTGGATTTG


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.17, C:0.05, G:0.30, T:0.47


Consensus pattern (21 bp):   
TATTTTTTTGGGGTGCAGATA

Found at i:7447 original size:7 final size:7

Alignment explanation


    Indices: 7435--7483  Score: 71
    Period size: 7  Copynumber: 7.0  Consensus size: 7

       7425 TACATTTGTG

                   
       7435 CTTTGCA
          1 CTTTGCA

             *    *
       7442 CCTTGCG
          1 CTTTGCA

                   
       7449 CTTTGCA
          1 CTTTGCA

                   
       7456 CTTTGCA
          1 CTTTGCA

                 * 
       7463 CTTTGGA
          1 CTTTGCA

                   
       7470 CTTTGCA
          1 CTTTGCA

                   
       7477 CTTTGCA
          1 CTTTGCA

       7484 GTCACATACA


Statistics
Matches: 36,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   7   36  1.00

ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41


Consensus pattern (7 bp):   
CTTTGCA

Done.