Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001594.1 Corchorus olitorius cultivar O-4 contig01594, 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, 805

Length: 1342
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35


Found at i:52 original size:25 final size:24

Alignment explanation


    Indices: 16--62  Score: 69
    Period size: 26  Copynumber: 1.9  Consensus size: 24

          6 TCCTTCTATT

                                    
         16 CATCTATCATC-AAGTTTTTCATC
          1 CATCTATCATCAAAGTTTTTCATC

                                    
         39 CATCTCATCCATCAAAGTTTTTCA
          1 CATCT-AT-CATCAAAGTTTTTCA

         63 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

Found at i:681 original size:21 final size:21

Alignment explanation


    Indices: 655--746  Score: 125
    Period size: 21  Copynumber: 4.4  Consensus size: 21

        645 TGCTAGAAGT

                                  
        655 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                        *         
        676 TCATTGGA-ACAAGTTCCAAGC
          1 TCATTGGAGA-AGGTTCCAAGC

                                *
        697 TCATTGGAGAAGGTTCCAAGA
          1 TCATTGGAGAAGGTTCCAAGC

                           *     
        718 TCATTGGAGAAGGTTTCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                    
        739 TCATTGGA
          1 TCATTGGA

        747 AATGCCTAAG


Statistics
Matches: 64,  Mismatches: 4, Indels: 6
        0.86            0.05        0.08

Matches are distributed among these distances:
  19    1  0.02
  20    1  0.02
  21   61  0.95
  22    1  0.02

ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26


Consensus pattern (21 bp):   
TCATTGGAGAAGGTTCCAAGC

Done.