Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010693.1 Corchorus olitorius cultivar O-4 contig10725, 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: 2917
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32


Found at i:985 original size:32 final size:34

Alignment explanation


    Indices: 906--987  Score: 98
    Period size: 32  Copynumber: 2.5  Consensus size: 34

        896 TGGTGCTGCA

                         *                    
        906 TGCTGATGCGCGGGATGGCTTCGACATGGCCTGG
          1 TGCTGATGCGCGGCATGGCTTCGACATGGCCTGG

              *                       *    *   
        940 TGTTGA-GCAGCGGCATGGC-TCGACGTGG-TTGG
          1 TGCTGATGC-GCGGCATGGCTTCGACATGGCCTGG

                            
        972 TGCTGATGCGCGGCAT
          1 TGCTGATGCGCGGCAT

        988 CGGCATGGCT


Statistics
Matches: 41,  Mismatches: 5, Indels: 6
        0.79            0.10        0.12

Matches are distributed among these distances:
  32   15  0.37
  33   12  0.29
  34   14  0.34

ACGTcount: A:0.12, C:0.22, G:0.41, T:0.24


Consensus pattern (34 bp):   
TGCTGATGCGCGGCATGGCTTCGACATGGCCTGG

Found at i:1075 original size:32 final size:32

Alignment explanation


    Indices: 1007--1077  Score: 81
    Period size: 32  Copynumber: 2.2  Consensus size: 32

        997 TCGGTATAGT

                                *     *    *
       1007 CCGGGCCATGGCCTGGCTTGTCTCGGTCATGG
          1 CCGGGCCATGGCCTGGCTTGACTCGGACATGC

                 *                  *        
       1039 CCGGGTCATGGCC-GGCTGTGACTTGGACATGC
          1 CCGGGCCATGGCCTGGCT-TGACTCGGACATGC

                   
       1071 CCGGGCC
          1 CCGGGCC

       1078 TTGTCTTGAT


Statistics
Matches: 32,  Mismatches: 6, Indels: 2
        0.80            0.15        0.05

Matches are distributed among these distances:
  31    4  0.12
  32   28  0.88

ACGTcount: A:0.08, C:0.32, G:0.38, T:0.21


Consensus pattern (32 bp):   
CCGGGCCATGGCCTGGCTTGACTCGGACATGC
Done.