Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019338.1 Corchorus olitorius cultivar O-4 contig19371, 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: 2970
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34


Found at i:959 original size:14 final size:14

Alignment explanation


    Indices: 934--990  Score: 55
    Period size: 14  Copynumber: 4.1  Consensus size: 14

        924 CCAGCTGGGC

                           
        934 CGCGCGCTGGCCCAG
          1 CGCGC-CTGGCCCAG

                       ** 
        949 CGCGCCTGGCCTGG
          1 CGCGCCTGGCCCAG

                      * * 
        963 CGCGCCTGG-GCTG
          1 CGCGCCTGGCCCAG

                          
        976 CGCG-CTGGCCCAG
          1 CGCGCCTGGCCCAG

              
        989 CG
          1 CG

        991 TGCTTGGCCT


Statistics
Matches: 34,  Mismatches: 7, Indels: 4
        0.76            0.16        0.09

Matches are distributed among these distances:
  12    4  0.12
  13    9  0.26
  14   16  0.47
  15    5  0.15

ACGTcount: A:0.04, C:0.44, G:0.42, T:0.11


Consensus pattern (14 bp):   
CGCGCCTGGCCCAG

Found at i:979 original size:40 final size:40

Alignment explanation


    Indices: 928--1014  Score: 129
    Period size: 40  Copynumber: 2.2  Consensus size: 40

        918 GCCAAGCCAG

                                                *   
        928 CTGGGCCGCGCGCTGGCCCAGCGCGCCTGGCCTGGCGCGC
          1 CTGGGCCGCGCGCTGGCCCAGCGCGCCTGGCCTGGCACGC

                  *                *  *             
        968 CTGGGCTGCGCGCTGGCCCAGCGTGCTTGGCCTGGCACGC
          1 CTGGGCCGCGCGCTGGCCCAGCGCGCCTGGCCTGGCACGC

            *      
       1008 TTGGGCC
          1 CTGGGCC

       1015 ACGCCAGGCA


Statistics
Matches: 41,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  40   41  1.00

ACGTcount: A:0.03, C:0.40, G:0.41, T:0.15


Consensus pattern (40 bp):   
CTGGGCCGCGCGCTGGCCCAGCGCGCCTGGCCTGGCACGC
Done.