Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010202.1 Corchorus capsularis cultivar CVL-1 contig10223, 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: 7364
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34


Found at i:551 original size:3 final size:3

Alignment explanation


    Indices: 545--575  Score: 62
    Period size: 3  Copynumber: 10.3  Consensus size: 3

        535 TTTAGGGTGT

                                                     
        545 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

        576 ATTTTGAATG


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   28  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTA

Found at i:971 original size:17 final size:17

Alignment explanation


    Indices: 949--983  Score: 70
    Period size: 17  Copynumber: 2.1  Consensus size: 17

        939 TTTGTCAACT

                             
        949 TAGGCTGAGACAGAACA
          1 TAGGCTGAGACAGAACA

                             
        966 TAGGCTGAGACAGAACA
          1 TAGGCTGAGACAGAACA

             
        983 T
          1 T

        984 TTGTCTTGGC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   18  1.00

ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14


Consensus pattern (17 bp):   
TAGGCTGAGACAGAACA

Found at i:1062 original size:47 final size:47

Alignment explanation


    Indices: 993--1089  Score: 185
    Period size: 47  Copynumber: 2.1  Consensus size: 47

        983 TTTGTCTTGG

                                                           
        993 CATTGGATTGGGCTAAAGAAAATAGAAATTAAGCCCATAGTAACTAA
          1 CATTGGATTGGGCTAAAGAAAATAGAAATTAAGCCCATAGTAACTAA

                                                       *   
       1040 CATTGGATTGGGCTAAAGAAAATAGAAATTAAGCCCATAGTAAGTAA
          1 CATTGGATTGGGCTAAAGAAAATAGAAATTAAGCCCATAGTAACTAA

               
       1087 CAT
          1 CAT

       1090 ATAGTATTTG


Statistics
Matches: 49,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  47   49  1.00

ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24


Consensus pattern (47 bp):   
CATTGGATTGGGCTAAAGAAAATAGAAATTAAGCCCATAGTAACTAA
Done.