Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019303.1 Corchorus olitorius cultivar O-4 contig19336, 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: 2120
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30


Found at i:965 original size:76 final size:76

Alignment explanation


    Indices: 815--958  Score: 177
    Period size: 76  Copynumber: 1.9  Consensus size: 76

        805 ACAAGGACCC

                                                               *           * 
        815 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
          1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT

                       
        880 GGGCAGTGTCA
         66 GGGCAGTGTCA

                    *     *              *                            **     
        891 CGACTCCAGCTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
          1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCCA

                  
        953 GATGGG
         63 GATGGG

        959 TTGTGTCTTA


Statistics
Matches: 58,  Mismatches: 7, Indels: 6
        0.82            0.10        0.08

Matches are distributed among these distances:
  75    4  0.07
  76   48  0.83
  77    6  0.10

ACGTcount: A:0.17, C:0.30, G:0.29, T:0.24


Consensus pattern (76 bp):   
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
GGGCAGTGTCA

Found at i:1020 original size:25 final size:25

Alignment explanation


    Indices: 992--1051  Score: 120
    Period size: 25  Copynumber: 2.4  Consensus size: 25

        982 ACATGTCTTC

                                     
        992 TTGCCTTGAACTTGTATTTGCTCCT
          1 TTGCCTTGAACTTGTATTTGCTCCT

                                     
       1017 TTGCCTTGAACTTGTATTTGCTCCT
          1 TTGCCTTGAACTTGTATTTGCTCCT

                      
       1042 TTGCCTTGAA
          1 TTGCCTTGAA

       1052 AACACCAAGC


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   35  1.00

ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47


Consensus pattern (25 bp):   
TTGCCTTGAACTTGTATTTGCTCCT
Done.