Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008497.1 Corchorus capsularis cultivar CVL-1 contig08518, 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: 4268
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31


Found at i:1060 original size:17 final size:17

Alignment explanation


    Indices: 1038--1071  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       1028 GAATCGGCTA

                             
       1038 TGAATTTTTGAAGTTTC
          1 TGAATTTTTGAAGTTTC

                        *    
       1055 TGAATTTTTGAATTTTC
          1 TGAATTTTTGAAGTTTC

       1072 AAAAAGGGTG


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:0.06, G:0.15, T:0.56


Consensus pattern (17 bp):   
TGAATTTTTGAAGTTTC

Found at i:3506 original size:33 final size:33

Alignment explanation


    Indices: 3469--3575  Score: 135
    Period size: 33  Copynumber: 3.2  Consensus size: 33

       3459 AGCACTAGTG

                    *            *           
       3469 ACCGGCCATGCGACTTGGAGAAGCCCGGCCAAC
          1 ACCGGCCACGCGACTTGGAGATGCCCGGCCAAC

                           *               * 
       3502 ACCGGCCACGCGACTCGGAGATGCCCGGCCATC
          1 ACCGGCCACGCGACTTGGAGATGCCCGGCCAAC

                          *    *   *         
       3535 ACCGGCCACGCGACATGGACATGTCCGGCC-AC
          1 ACCGGCCACGCGACTTGGAGATGCCCGGCCAAC

                     
       3567 AACCGGCCA
          1 -ACCGGCCA

       3576 TTGCTAGGCG


Statistics
Matches: 64,  Mismatches: 9, Indels: 2
        0.85            0.12        0.03

Matches are distributed among these distances:
  32    1  0.02
  33   63  0.98

ACGTcount: A:0.22, C:0.40, G:0.29, T:0.08


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGATGCCCGGCCAAC
Done.