Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008540.1 Corchorus olitorius cultivar O-4 contig08567, 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: 7896
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32


Found at i:7612 original size:29 final size:30

Alignment explanation


    Indices: 7549--7622  Score: 96
    Period size: 29  Copynumber: 2.5  Consensus size: 30

       7539 TACCCAGAAA

                                *          
       7549 AATCCCTTATGTTTTGCTTTTGGGACAAAAT
          1 AATCCCTTATGTTTT-CTTTCGGGACAAAAT

                                    *   * 
       7580 AATCCCTTATGTTTT-TTTCGGGATAAATT
          1 AATCCCTTATGTTTTCTTTCGGGACAAAAT

                     *    
       7609 AATCCCTTACGTTT
          1 AATCCCTTATGTTT

       7623 CAAAAATAAG


Statistics
Matches: 39,  Mismatches: 4, Indels: 2
        0.87            0.09        0.04

Matches are distributed among these distances:
  29   24  0.62
  31   15  0.38

ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45


Consensus pattern (30 bp):   
AATCCCTTATGTTTTCTTTCGGGACAAAAT

Found at i:7826 original size:30 final size:29

Alignment explanation


    Indices: 7766--7828  Score: 90
    Period size: 31  Copynumber: 2.1  Consensus size: 29

       7756 AAGGGACTAA

                                         
       7766 TTTGTCCAAAAAAAAACATAAGGGATTTT
          1 TTTGTCCAAAAAAAAACATAAGGGATTTT

                             *   *         
       7795 TTTGTCCCAAAAGAAAATCATTAGGGATTTT
          1 TTTGT-CCAAAA-AAAAACATAAGGGATTTT

               
       7826 TTT
          1 TTT

       7829 AGTATTTAGT


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  29    5  0.17
  30    6  0.20
  31   19  0.63

ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37


Consensus pattern (29 bp):   
TTTGTCCAAAAAAAAACATAAGGGATTTT
Done.