Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002423.1 Corchorus capsularis cultivar CVL-1 contig02429, 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, 612

Length: 1020
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36


Found at i:428 original size:26 final size:28

Alignment explanation


    Indices: 399--450  Score: 90
    Period size: 26  Copynumber: 1.9  Consensus size: 28

        389 TGTCTTTATT

                                        
        399 TTATCTCTTTATTCA-G-AGTCAAAGAC
          1 TTATCTCTTTATTCAGGAAGTCAAAGAC

                                      
        425 TTATCTCTTTATTCAGGAAGTCAAAG
          1 TTATCTCTTTATTCAGGAAGTCAAAG

        451 CAGAAAACAA


Statistics
Matches: 24,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  26   15  0.62
  27    1  0.04
  28    8  0.33

ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38


Consensus pattern (28 bp):   
TTATCTCTTTATTCAGGAAGTCAAAGAC

Found at i:762 original size:15 final size:15

Alignment explanation


    Indices: 738--774  Score: 65
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        728 AAACAACTCT

                 *         
        738 TTTTTTTTAATATCG
          1 TTTTTGTTAATATCG

                           
        753 TTTTTGTTAATATCG
          1 TTTTTGTTAATATCG

                   
        768 TTTTTGT
          1 TTTTTGT

        775 AAATTCGTCT


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   21  1.00

ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68


Consensus pattern (15 bp):   
TTTTTGTTAATATCG

Found at i:782 original size:14 final size:15

Alignment explanation


    Indices: 746--782  Score: 58
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        736 CTTTTTTTTT

                          *
        746 AATATCGTTTTTGTT
          1 AATATCGTTTTTGTA

                           
        761 AATATCGTTTTTGTA
          1 AATATCGTTTTTGTA

                    
        776 AAT-TCGT
          1 AATATCGT

        783 CTCTTCCTTA


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  14    4  0.19
  15   17  0.81

ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54


Consensus pattern (15 bp):   
AATATCGTTTTTGTA
Done.