Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001534.1 Corchorus olitorius cultivar O-4 contig01534, 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: 1896
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:633 original size:27 final size:27

Alignment explanation


    Indices: 575--652  Score: 77
    Period size: 26  Copynumber: 2.9  Consensus size: 27

        565 CTCTAAAAGC

                                 * **  
        575 ACAAATGACCAAAATG-CCCTTAGTAT
          1 ACAAATGACCAAAATGCCCCTAAACAT

             *                         
        601 AAAAATGACCAAAATGCCCCTAAACAT
          1 ACAAATGACCAAAATGCCCCTAAACAT

            *                *       
        628 GCAAATGACCCCAAAATTCCCCTAA
          1 ACAAATGA--CCAAAATGCCCCTAA

        653 GTGACCCTAA


Statistics
Matches: 42,  Mismatches: 7, Indels: 3
        0.81            0.13        0.06

Matches are distributed among these distances:
  26   15  0.36
  27   13  0.31
  29   14  0.33

ACGTcount: A:0.45, C:0.28, G:0.09, T:0.18


Consensus pattern (27 bp):   
ACAAATGACCAAAATGCCCCTAAACAT

Found at i:1636 original size:25 final size:25

Alignment explanation


    Indices: 1607--1654  Score: 87
    Period size: 25  Copynumber: 1.9  Consensus size: 25

       1597 GTATTTTGCG

                                     
       1607 TTCATGTAGCTCAAAGCTAATTTCA
          1 TTCATGTAGCTCAAAGCTAATTTCA

                           *       
       1632 TTCATGTAGCTCAAATCTAATTT
          1 TTCATGTAGCTCAAAGCTAATTT

       1655 AATCAACTAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   22  1.00

ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40


Consensus pattern (25 bp):   
TTCATGTAGCTCAAAGCTAATTTCA
Done.