Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022752.1 Corchorus olitorius cultivar O-4 contig22785, 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: 12488
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:3668 original size:29 final size:29

Alignment explanation


    Indices: 3605--3691  Score: 88
    Period size: 29  Copynumber: 3.0  Consensus size: 29

       3595 CAAAGCTTTG

                *            *     *      
       3605 ACACGAGTGCA-AACCCACACTCAAAACAA
          1 ACACAAGTGCACAACCCCCACT-TAAACAA

            *        *             *     
       3634 TC-CAAGTGTACAACCCCCACTTGAACAA
          1 ACACAAGTGCACAACCCCCACTTAAACAA

                             *           
       3662 ACACAAGTGCACAACCCGCACTTAAACAA
          1 ACACAAGTGCACAACCCCCACTTAAACAA

             
       3691 A
          1 A

       3692 ATCAGAAAAA


Statistics
Matches: 46,  Mismatches: 10, Indels: 4
        0.77            0.17        0.07

Matches are distributed among these distances:
  28   12  0.26
  29   34  0.74

ACGTcount: A:0.44, C:0.34, G:0.10, T:0.11


Consensus pattern (29 bp):   
ACACAAGTGCACAACCCCCACTTAAACAA

Found at i:4958 original size:14 final size:14

Alignment explanation


    Indices: 4922--4963  Score: 52
    Period size: 14  Copynumber: 3.1  Consensus size: 14

       4912 TACAAAAGAG

                        * 
       4922 CTCAATTCATAAAA
          1 CTCAATTCATAATA

                       *  
       4936 CTC--TTCATAGTA
          1 CTCAATTCATAATA

                          
       4948 CTCAATTCATAATA
          1 CTCAATTCATAATA

              
       4962 CT
          1 CT

       4964 TCTCCCCCCT


Statistics
Matches: 23,  Mismatches: 3, Indels: 4
        0.77            0.10        0.13

Matches are distributed among these distances:
  12   10  0.43
  14   13  0.57

ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36


Consensus pattern (14 bp):   
CTCAATTCATAATA
Done.