Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018581.1 Corchorus olitorius cultivar O-4 contig18614, 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: 4438
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33


Found at i:725 original size:22 final size:23

Alignment explanation


    Indices: 682--750  Score: 61
    Period size: 22  Copynumber: 3.0  Consensus size: 23

        672 ATTCAAAGCC

                      *   *         
        682 TTCTTTTTCTTATTGTTATTTT-T
          1 TTCTTTTT-TCATTCTTATTTTCT

                            *      
        705 TTCTTTTTTCATTCTTCTTTTCT
          1 TTCTTTTTTCATTCTTATTTTCT

                      *  *   *     
        728 TT-TTTTTTCTTTTTTACTTTCT
          1 TTCTTTTTTCATTCTTATTTTCT

             
        750 T
          1 T

        751 GAACTCAATT


Statistics
Matches: 38,  Mismatches: 7, Indels: 3
        0.79            0.15        0.06

Matches are distributed among these distances:
  22   27  0.71
  23   11  0.29

ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78


Consensus pattern (23 bp):   
TTCTTTTTTCATTCTTATTTTCT

Found at i:737 original size:18 final size:18

Alignment explanation


    Indices: 701--747  Score: 60
    Period size: 18  Copynumber: 2.6  Consensus size: 18

        691 TTATTGTTAT

                              
        701 TTTTTTCTTTTTTCATTC
          1 TTTTTTCTTTTTTCATTC

                           *   
        719 TTCTTTTCTTTTTT-TTTC
          1 TT-TTTTCTTTTTTCATTC

                       
        737 TTTTTTACTTT
          1 TTTTTT-CTTT

        748 CTTGAACTCA


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  17    4  0.15
  18   11  0.42
  19   11  0.42

ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81


Consensus pattern (18 bp):   
TTTTTTCTTTTTTCATTC
Done.