Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020936.1 Corchorus olitorius cultivar O-4 contig20969, 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: 8004
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34


Found at i:5302 original size:32 final size:32

Alignment explanation


    Indices: 5261--5332  Score: 99
    Period size: 32  Copynumber: 2.2  Consensus size: 32

       5251 CTCAAAGAAC

                         *          *     * 
       5261 ATTTTGTCCTACTTTGTCAAAATTTGACGGTT
          1 ATTTTGTCCTACTATGTCAAAATTCGACGGCT

                      *                *    
       5293 ATTTTGTCCTTCTATGTCAAAATTCGAGGGCT
          1 ATTTTGTCCTACTATGTCAAAATTCGACGGCT

                    
       5325 ATTTTGTC
          1 ATTTTGTC

       5333 TACAATTTGG


Statistics
Matches: 35,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  32   35  1.00

ACGTcount: A:0.21, C:0.17, G:0.17, T:0.46


Consensus pattern (32 bp):   
ATTTTGTCCTACTATGTCAAAATTCGACGGCT

Found at i:7130 original size:23 final size:26

Alignment explanation


    Indices: 7104--7157  Score: 60
    Period size: 23  Copynumber: 2.2  Consensus size: 26

       7094 AAAACTATAT

                                      
       7104 ATTTCTTAGAAA-AA-TTA-GCAACC
          1 ATTTCTTAGAAATAATTTAGGCAACC

                *   *            *    
       7127 ATTTTTTATAAATAATTTAGGTAACC
          1 ATTTCTTAGAAATAATTTAGGCAACC

                 
       7153 ATTTC
          1 ATTTC

       7158 ATCAACAATA


Statistics
Matches: 24,  Mismatches: 4, Indels: 3
        0.77            0.13        0.10

Matches are distributed among these distances:
  23   10  0.42
  24    2  0.08
  25    3  0.12
  26    9  0.38

ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41


Consensus pattern (26 bp):   
ATTTCTTAGAAATAATTTAGGCAACC
Done.