Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003597.1 Corchorus capsularis cultivar CVL-1 contig03605, 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: 1810
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30


Found at i:533 original size:30 final size:29

Alignment explanation


    Indices: 485--562  Score: 102
    Period size: 30  Copynumber: 2.6  Consensus size: 29

        475 TGGAGAGGAT

                  *               *      
        485 GCCATCACACAAGACCGGCCATTGCATGG
          1 GCCATCGCACAAGACCGGCCATGGCATGG

              *         *                 
        514 AGGCATCGCACATGACCGGCCATGGCATGG
          1 -GCCATCGCACAAGACCGGCCATGGCATGG

                               
        544 GCCAATCGCACAAGACCGG
          1 GCC-ATCGCACAAGACCGG

        563 GCACAACCGG


Statistics
Matches: 41,  Mismatches: 6, Indels: 2
        0.84            0.12        0.04

Matches are distributed among these distances:
  29    2  0.05
  30   39  0.95

ACGTcount: A:0.27, C:0.33, G:0.28, T:0.12


Consensus pattern (29 bp):   
GCCATCGCACAAGACCGGCCATGGCATGG

Found at i:1012 original size:33 final size:33

Alignment explanation


    Indices: 975--1081  Score: 135
    Period size: 33  Copynumber: 3.2  Consensus size: 33

        965 AGCACTAGTG

                    *            *           
        975 ACCGGCCATGCGACTTGGAGAAGTCCGGCCAAC
          1 ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

                      *    *       *         
       1008 ACCGGCCACGTGACTCGGAGATGCCCGGCCAAC
          1 ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

                          *    *             
       1041 ACCGGCCACGCGACATGGACATGTCCGGCC-AC
          1 ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

                     
       1073 AACCGGCCA
          1 -ACCGGCCA

       1082 TTGCTAGGCG


Statistics
Matches: 63,  Mismatches: 10, Indels: 2
        0.84            0.13        0.03

Matches are distributed among these distances:
  32    2  0.03
  33   61  0.97

ACGTcount: A:0.23, C:0.38, G:0.29, T:0.09


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC
Done.