Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005257.1 Corchorus capsularis cultivar CVL-1 contig05275, 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: 2449
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:695 original size:33 final size:33

Alignment explanation


    Indices: 658--742  Score: 98
    Period size: 33  Copynumber: 2.6  Consensus size: 33

        648 AGCACTAGTG

                    *              *  *      
        658 ACCGGCCATGCGACTTGGAGAAGTCCGGCCAAC
          1 ACCGGCCACGCGACTTGGAGAAGCCCAGCCAAC

                      *    *     *           
        691 ACCGGCCACGTGACTCGGAGATGCCCAGCCAAC
          1 ACCGGCCACGCGACTTGGAGAAGCCCAGCCAAC

              *           *    
        724 ACTGGCCACGCGACATGGA
          1 ACCGGCCACGCGACTTGGA

        743 CATGTCCACC


Statistics
Matches: 42,  Mismatches: 10, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  33   42  1.00

ACGTcount: A:0.25, C:0.35, G:0.29, T:0.11


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGAAGCCCAGCCAAC

Found at i:1042 original size:17 final size:19

Alignment explanation


    Indices: 1010--1044  Score: 56
    Period size: 17  Copynumber: 1.9  Consensus size: 19

       1000 TCATGGGCCT

                               
       1010 TTATTCTATCTTAGTTTAA
          1 TTATTCTATCTTAGTTTAA

                              
       1029 TTATT-TAT-TTAGTTTA
          1 TTATTCTATCTTAGTTTA

       1045 GAAGACATTG


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  17    8  0.50
  18    3  0.19
  19    5  0.31

ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63


Consensus pattern (19 bp):   
TTATTCTATCTTAGTTTAA

Found at i:1801 original size:9 final size:9

Alignment explanation


    Indices: 1783--1818  Score: 54
    Period size: 9  Copynumber: 3.9  Consensus size: 9

       1773 AGTTATATCG

                 *   
       1783 AAAAATATA
          1 AAAAAAATA

                     
       1792 AAAAAAATA
          1 AAAAAAATA

                      
       1801 AAATAAAATA
          1 AAA-AAAATA

                    
       1811 AAAAAAAT
          1 AAAAAAAT

       1819 TTCGACCAGA


Statistics
Matches: 25,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
   9   16  0.64
  10    9  0.36

ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17


Consensus pattern (9 bp):   
AAAAAAATA
Done.