Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008153.1 Corchorus capsularis cultivar CVL-1 contig08174, 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: 11375
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30


Found at i:6715 original size:20 final size:20

Alignment explanation


    Indices: 6692--6730  Score: 69
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       6682 TGGCGCAGCA

                                
       6692 CCAATTTGCAAATCAAATGT
          1 CCAATTTGCAAATCAAATGT

                    *          
       6712 CCAATTTGTAAATCAAATG
          1 CCAATTTGCAAATCAAATG

       6731 CCTTGTATTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  20   18  1.00

ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31


Consensus pattern (20 bp):   
CCAATTTGCAAATCAAATGT

Found at i:11191 original size:35 final size:35

Alignment explanation


    Indices: 11160--11375  Score: 369
    Period size: 35  Copynumber: 6.2  Consensus size: 35

      11150 GGTCATTTTC

                                               
      11160 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA
          1 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

                                            *  
      11195 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTTCA
          1 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

                    *                          
      11230 AGAAGTTTCCAGAGGTCAGAGTTGATCTCATTCCA
          1 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

                              *             *  
      11265 AGAAGTTTTCAGAGGTCAAAGTTGATCTCATTTCA
          1 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

                                       *       
      11300 AGAAGTTTTCAGAGGTCAGAGTTGATCCCATTCCA
          1 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

                                            ** 
      11335 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTGGA
          1 AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

                  
      11370 AGAAGT
          1 AGAAGT


Statistics
Matches: 169,  Mismatches: 12, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  35  169  1.00

ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31


Consensus pattern (35 bp):   
AGAAGTTTTCAGAGGTCAGAGTTGATCTCATTCCA

Done.