Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009364.1 Corchorus capsularis cultivar CVL-1 contig09385, 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: 13911
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30


Found at i:51 original size:32 final size:31

Alignment explanation


    Indices: 10--168  Score: 151
    Period size: 32  Copynumber: 4.9  Consensus size: 31

          1 TTTTGGTCT

                                          * 
         10 AGCCGCCCCATCGGGGCGGCCTGCCGTGGCAA
          1 AGCCGCCCCAT-GGGGCGGCCTGCCGTGGCGA

                       *   *  *             
         42 AGCCGCCCCACCGGGACGACCTGCCGTGGCGA
          1 AGCCGCCCCA-TGGGGCGGCCTGCCGTGGCGA

                            * *             
         74 AGCCGCCCCATGAGGGTGACCTGCCGTGGCGA
          1 AGCCGCCCCATG-GGGCGGCCTGCCGTGGCGA

                            *                 
        106 AGCCGCCCCAGTGGGGAGGTCC-GCCGTGGCTG-
          1 AGCCGCCCCA-TGGGGCGG-CCTGCCGTGGC-GA

                *               *          
        138 AGCCTCCCCAGTGGGGCGGCTTCGCCGTGGC
          1 AGCCGCCCCA-TGGGGCGGCCT-GCCGTGGC

        169 TGAGCCGTCC


Statistics
Matches: 108,  Mismatches: 12, Indels: 13
        0.81            0.09        0.10

Matches are distributed among these distances:
  31    2  0.02
  32   93  0.86
  33   13  0.12

ACGTcount: A:0.12, C:0.38, G:0.38, T:0.11


Consensus pattern (31 bp):   
AGCCGCCCCATGGGGCGGCCTGCCGTGGCGA

Found at i:169 original size:33 final size:32

Alignment explanation


    Indices: 96--188  Score: 116
    Period size: 33  Copynumber: 2.9  Consensus size: 32

         86 AGGGTGACCT

                                             
         96 GCCGTGGC-GAAGCCGCCCCAGTGGGGAGGTCC
          1 GCCGTGGCTG-AGCCGCCCCAGTGGGGAGGTCC

                          *           *    * 
        128 GCCGTGGCTGAGCCTCCCCAGTGGGGCGGCTTC
          1 GCCGTGGCTGAGCCGCCCCAGTGGGGAGG-TCC

                           *  *         
        161 GCCGTGGCTGAGCCGTCCTAGTGGGGAG
          1 GCCGTGGCTGAGCCGCCCCAGTGGGGAG

        189 ACTCAGTGTA


Statistics
Matches: 52,  Mismatches: 7, Indels: 3
        0.84            0.11        0.05

Matches are distributed among these distances:
  32   25  0.48
  33   27  0.52

ACGTcount: A:0.10, C:0.32, G:0.43, T:0.15


Consensus pattern (32 bp):   
GCCGTGGCTGAGCCGCCCCAGTGGGGAGGTCC
Done.