Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010733.1 Corchorus olitorius cultivar O-4 contig10765, 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: 6413
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31


Found at i:2781 original size:22 final size:21

Alignment explanation


    Indices: 2729--2782  Score: 60
    Period size: 19  Copynumber: 2.6  Consensus size: 21

       2719 GCTTCTTGGA

                                  
       2729 AATAATTCTTC-AATGATCTTC
          1 AATAA-TCTTCAAATGATCTTC

                          *      
       2750 -A-AATCTTCAAATTATCTTC
          1 AATAATCTTCAAATGATCTTC

                          
       2769 AATAAGTCTTCAAA
          1 AATAA-TCTTCAAA

       2783 CACGAACTTC


Statistics
Matches: 28,  Mismatches: 1, Indels: 7
        0.78            0.03        0.19

Matches are distributed among these distances:
  18    5  0.18
  19   11  0.39
  20    2  0.07
  21    2  0.07
  22    8  0.29

ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39


Consensus pattern (21 bp):   
AATAATCTTCAAATGATCTTC

Found at i:5637 original size:12 final size:12

Alignment explanation


    Indices: 5620--5645  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

       5610 GGGCGTTTTT

                        
       5620 GAGTCTAACTTA
          1 GAGTCTAACTTA

                        
       5632 GAGTCTAACTTA
          1 GAGTCTAACTTA

              
       5644 GA
          1 GA

       5646 TTAAAAGTCT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31


Consensus pattern (12 bp):   
GAGTCTAACTTA

Found at i:6141 original size:22 final size:21

Alignment explanation


    Indices: 6089--6142  Score: 60
    Period size: 19  Copynumber: 2.6  Consensus size: 21

       6079 CTTGCTTGGA

                                  
       6089 AATAATTCTTC-AATGATCTTC
          1 AATAA-TCTTCAAATGATCTTC

                          *      
       6110 -A-AATCTTCAAATTATCTTC
          1 AATAATCTTCAAATGATCTTC

                          
       6129 AATAAGTCTTCAAA
          1 AATAA-TCTTCAAA

       6143 CACGAACTTC


Statistics
Matches: 28,  Mismatches: 1, Indels: 7
        0.78            0.03        0.19

Matches are distributed among these distances:
  18    5  0.18
  19   11  0.39
  20    2  0.07
  21    2  0.07
  22    8  0.29

ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39


Consensus pattern (21 bp):   
AATAATCTTCAAATGATCTTC
Done.