Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000296.1 Corchorus olitorius cultivar O-4 contig00296, 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: 1826
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33


Found at i:284 original size:21 final size:21

Alignment explanation


    Indices: 260--376  Score: 182
    Period size: 21  Copynumber: 5.6  Consensus size: 21

        250 CTTAGGCAAT

                    *    *       
        260 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                    *            
        281 TCCAATGATCTTGGAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                                 
        302 TCCAATGAACTTGGAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                                 
        323 TCCAATGAACTTGGAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                    *             
        344 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAACTTGGAACCTT-C

                        
        365 TCCAATGAACTT
          1 TCCAATGAACTT

        377 CTAGCATCTT


Statistics
Matches: 90,  Mismatches: 5, Indels: 2
        0.93            0.05        0.02

Matches are distributed among these distances:
  20    3  0.03
  21   87  0.97

ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30


Consensus pattern (21 bp):   
TCCAATGAACTTGGAACCTTC

Found at i:930 original size:25 final size:24

Alignment explanation


    Indices: 894--940  Score: 69
    Period size: 26  Copynumber: 1.9  Consensus size: 24

        884 TCCTTCTATT

                                    
        894 CATCTATCATC-AAGTTTTTCATC
          1 CATCTATCATCAAAGTTTTTCATC

                                    
        917 CATCTCATCCATCAAAGTTTTTCA
          1 CATCT-AT-CATCAAAGTTTTTCA

        941 AATTTTCTAG


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  23    5  0.24
  24    2  0.10
  25    4  0.19
  26   10  0.48

ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40


Consensus pattern (24 bp):   
CATCTATCATCAAAGTTTTTCATC

Done.