Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000168.1 Corchorus olitorius cultivar O-4 contig00168, 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: 1686
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27


Found at i:355 original size:24 final size:23

Alignment explanation


    Indices: 324--389  Score: 82
    Period size: 21  Copynumber: 2.9  Consensus size: 23

        314 AAATCCAAGT

                            *       
        324 AATCAACATAAAAAATTCACAAAC
          1 AATCAACAT-AAAAATCCACAAAC

             *                     
        348 ATTCAAC--AAAAATCCACAAAC
          1 AATCAACATAAAAATCCACAAAC

                                 
        369 AATCAACATTAAAAATCCACA
          1 AATCAACA-TAAAAATCCACA

        390 TAAATTGGTT


Statistics
Matches: 36,  Mismatches: 3, Indels: 6
        0.80            0.07        0.13

Matches are distributed among these distances:
  21   19  0.53
  24   17  0.47

ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17


Consensus pattern (23 bp):   
AATCAACATAAAAATCCACAAAC

Found at i:840 original size:20 final size:20

Alignment explanation


    Indices: 815--852  Score: 58
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        805 GGCCATCTGA

                   *     *      
        815 CGGTAATCTCCCAGGATACT
          1 CGGTAATATCCCAAGATACT

                              
        835 CGGTAATATCCCAAGATA
          1 CGGTAATATCCCAAGATA

        853 ACCACCAACC


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  20   16  1.00

ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24


Consensus pattern (20 bp):   
CGGTAATATCCCAAGATACT
Done.