Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010742.1 Corchorus capsularis cultivar CVL-1 contig10763, 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: 17519
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30


Found at i:1449 original size:17 final size:17

Alignment explanation


    Indices: 1412--1449  Score: 58
    Period size: 17  Copynumber: 2.2  Consensus size: 17

       1402 TCATAGTACC

                            *
       1412 TAGGTAGTATGAGATGC
          1 TAGGTAGTATGAGATGA

                         *   
       1429 TAGGTAGTATGAGGTGA
          1 TAGGTAGTATGAGATGA

                
       1446 TAGG
          1 TAGG

       1450 CTGCATCTGC


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  17   19  1.00

ACGTcount: A:0.29, C:0.03, G:0.39, T:0.29


Consensus pattern (17 bp):   
TAGGTAGTATGAGATGA

Found at i:10600 original size:17 final size:17

Alignment explanation


    Indices: 10563--10601  Score: 60
    Period size: 17  Copynumber: 2.3  Consensus size: 17

      10553 TCATAGTACC

                            *
      10563 TAGGTAGTATGAGATGC
          1 TAGGTAGTATGAGATGA

                         *   
      10580 TAGGTAGTATGAGGTGA
          1 TAGGTAGTATGAGATGA

                 
      10597 TAGGT
          1 TAGGT

      10602 TGCATCTGCT


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  17   20  1.00

ACGTcount: A:0.28, C:0.03, G:0.38, T:0.31


Consensus pattern (17 bp):   
TAGGTAGTATGAGATGA

Found at i:12871 original size:17 final size:16

Alignment explanation


    Indices: 12828--12874  Score: 62
    Period size: 14  Copynumber: 3.0  Consensus size: 16

      12818 TAACTTACAC

                            
      12828 TTTTTTACTTTAATTT
          1 TTTTTTACTTTAATTT

                    *       
      12844 TTTTTT--GTTAATTT
          1 TTTTTTACTTTAATTT

                             
      12858 ATTTTTTACTTTAATTT
          1 -TTTTTTACTTTAATTT

      12875 GCATGTCTCC


Statistics
Matches: 26,  Mismatches: 2, Indels: 5
        0.79            0.06        0.15

Matches are distributed among these distances:
  14    7  0.27
  15    6  0.23
  16    6  0.23
  17    7  0.27

ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74


Consensus pattern (16 bp):   
TTTTTTACTTTAATTT
Done.