Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009314.1 Corchorus capsularis cultivar CVL-1 contig09335, 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: 4931
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30


Found at i:2029 original size:33 final size:32

Alignment explanation


    Indices: 1989--2096  Score: 117
    Period size: 33  Copynumber: 3.3  Consensus size: 32

       1979 AGCACTTGTG

                                             
       1989 ACCGGCCACGCGACTTGGAGATGCCCGCGCAAC
          1 ACCGGCCACGCGACTTGGAGATGCCCG-GCAAC

                    *             *        * 
       2022 ACCGGCCATGCGACTTGGAGATACCCGGCCATC
          1 ACCGGCCACGCGACTTGGAGATGCCCGG-CAAC

            *             *   **         *  
       2055 CCCGGCCACGCGACATGGCCATGCCCGGCCAC
          1 ACCGGCCACGCGACTTGGAGATGCCCGGCAAC

                      
       2087 AACCGGCCAC
          1 -ACCGGCCAC

       2097 AGGACTCAGC


Statistics
Matches: 61,  Mismatches: 12, Indels: 4
        0.79            0.16        0.05

Matches are distributed among these distances:
  32    3  0.05
  33   58  0.95

ACGTcount: A:0.20, C:0.43, G:0.28, T:0.09


Consensus pattern (32 bp):   
ACCGGCCACGCGACTTGGAGATGCCCGGCAAC

Found at i:4709 original size:19 final size:18

Alignment explanation


    Indices: 4676--4711  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4666 TTGAAATAAT

                              
       4676 TCTTCAATAATCTTCAAA
          1 TCTTCAATAATCTTCAAA

                     *        
       4694 TCTTCAAATTATCTTCAA
          1 TCTTC-AATAATCTTCAA

       4712 GAAATCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42


Consensus pattern (18 bp):   
TCTTCAATAATCTTCAAA
Done.