Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002833.1 Corchorus capsularis cultivar CVL-1 contig02841, 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: 1759
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29


Found at i:1037 original size:33 final size:32

Alignment explanation


    Indices: 1007--1103  Score: 113
    Period size: 33  Copynumber: 2.9  Consensus size: 32

        997 TGACCGGTTA

                       *                     
       1007 TGGCCGGACATGTCCATGTCGCGTGGCCGGTGT
          1 TGGCCGGACATCTCCA-GTCGCGTGGCCGGTGT

                   *            *            
       1040 TGGCCGGGCATCTCCGAGTCACGTGGCCGGTGT
          1 TGGCCGGACATCTCC-AGTCGCGTGGCCGGTGT

                 *   *            *        
       1073 TGGCCAGACTTCTCCAAGTCGCATGGCCGGT
          1 TGGCCGGACATCTCC-AGTCGCGTGGCCGGT

       1104 CACTAGTGCT


Statistics
Matches: 54,  Mismatches: 9, Indels: 2
        0.83            0.14        0.03

Matches are distributed among these distances:
  33   53  0.98
  34    1  0.02

ACGTcount: A:0.11, C:0.30, G:0.36, T:0.23


Consensus pattern (32 bp):   
TGGCCGGACATCTCCAGTCGCGTGGCCGGTGT

Found at i:1731 original size:36 final size:36

Alignment explanation


    Indices: 1666--1736  Score: 92
    Period size: 37  Copynumber: 2.0  Consensus size: 36

       1656 GGATTATTTC

                                                 
       1666 CAATGCTATAATCAAACCAAAACATTAATTTGTTTTT
          1 CAATGCTATAATCAAACCAAAACATTAA-TTGTTTTT

                     **                         
       1703 CAATGCTATGTTC-AACCAAAAACA-TAATTGTTTT
          1 CAATGCTATAATCAAACC-AAAACATTAATTGTTTT

       1737 CATCACAATT


Statistics
Matches: 31,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  35    7  0.23
  36    7  0.23
  37   17  0.55

ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37


Consensus pattern (36 bp):   
CAATGCTATAATCAAACCAAAACATTAATTGTTTTT
Done.