Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012911.1 Corchorus olitorius cultivar O-4 contig12944, 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: 3851
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34


Found at i:892 original size:15 final size:15

Alignment explanation


    Indices: 868--913  Score: 58
    Period size: 15  Copynumber: 3.1  Consensus size: 15

        858 GGATAAGGTT

                           
        868 ACTCCAGAAGAGTCC
          1 ACTCCAGAAGAGTCC

                 *         *
        883 ACTCCTGAAGAGAT-T
          1 ACTCCAGAAGAG-TCC

                           
        898 ACTCCAGAAGAGTCC
          1 ACTCCAGAAGAGTCC

             
        913 A
          1 A

        914 TAGGCATAAT


Statistics
Matches: 25,  Mismatches: 4, Indels: 4
        0.76            0.12        0.12

Matches are distributed among these distances:
  14    1  0.04
  15   23  0.92
  16    1  0.04

ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17


Consensus pattern (15 bp):   
ACTCCAGAAGAGTCC

Found at i:3824 original size:2 final size:2

Alignment explanation


    Indices: 3817--3851  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       3807 CTTTTATTTA

                                                                
       3817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.