Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001676.1 Corchorus capsularis cultivar CVL-1 contig01676, 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, 868

Length: 1447
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33


Found at i:839 original size:17 final size:17

Alignment explanation


    Indices: 817--850  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        807 GCGAATCTAT

                  *          
        817 TCTATCGAGTTATTTGA
          1 TCTATCCAGTTATTTGA

                             
        834 TCTATCCAGTTATTTGA
          1 TCTATCCAGTTATTTGA

        851 AGATGCAGGG


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47


Consensus pattern (17 bp):   
TCTATCCAGTTATTTGA

Found at i:983 original size:13 final size:13

Alignment explanation


    Indices: 965--992  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

        955 GAAAAGTGTA

                         
        965 ATTAGAATATAAT
          1 ATTAGAATATAAT

                         
        978 ATTAGAATATAAT
          1 ATTAGAATATAAT

              
        991 AT
          1 AT

        993 AATATAAAAG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39


Consensus pattern (13 bp):   
ATTAGAATATAAT

Found at i:1126 original size:19 final size:19

Alignment explanation


    Indices: 1102--1139  Score: 76
    Period size: 19  Copynumber: 2.0  Consensus size: 19

       1092 TCTATTTTTT

                               
       1102 TTATATAGAATAGAAAGAA
          1 TTATATAGAATAGAAAGAA

                               
       1121 TTATATAGAATAGAAAGAA
          1 TTATATAGAATAGAAAGAA

       1140 GAAGTCTACA


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

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26


Consensus pattern (19 bp):   
TTATATAGAATAGAAAGAA
Done.