Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000128.1 Corchorus capsularis cultivar CVL-1 contig00128, 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: 13075
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:6082 original size:85 final size:85

Alignment explanation


    Indices: 5983--6145  Score: 274
    Period size: 85  Copynumber: 1.9  Consensus size: 85

       5973 TGTTTGTTTA

                                                         *  *                
       5983 ATTAAATCTAATCTCTTTATAACTATTTTATTTTTACCA-TTTTATTATTTTAATTAAAAAACCT
          1 ATTAAATCTAATCTCTTTATAACTATTTTATTTTTACCATTTTTACTAATTTAATTAAAAAA-CT

                  *              
       6047 TAGATATATTAGAAGCTTTTG
         65 TAGATACATTAGAAGCTTTTG

                                                                     *       
       6068 ATTAAATCTAATCTCTTTATAACTATTTTATTTTTACCATTTTTACTAATTTAATTACAAAACTT
          1 ATTAAATCTAATCTCTTTATAACTATTTTATTTTTACCATTTTTACTAATTTAATTAAAAAACTT

                         
       6133 AGATACATTAGAA
         66 AGATACATTAGAA

       6146 TTTTTTAAAT


Statistics
Matches: 73,  Mismatches: 4, Indels: 2
        0.92            0.05        0.03

Matches are distributed among these distances:
  85   54  0.74
  86   19  0.26

ACGTcount: A:0.37, C:0.12, G:0.04, T:0.48


Consensus pattern (85 bp):   
ATTAAATCTAATCTCTTTATAACTATTTTATTTTTACCATTTTTACTAATTTAATTAAAAAACTT
AGATACATTAGAAGCTTTTG

Found at i:6349 original size:31 final size:31

Alignment explanation


    Indices: 6311--6369  Score: 118
    Period size: 31  Copynumber: 1.9  Consensus size: 31

       6301 AAATATTTTA

                                           
       6311 TTTTTACCATTTTACTATTTTAATTAAATTT
          1 TTTTTACCATTTTACTATTTTAATTAAATTT

                                        
       6342 TTTTTACCATTTTACTATTTTAATTAAA
          1 TTTTTACCATTTTACTATTTTAATTAAA

       6370 AGACTTAGGT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   28  1.00

ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59


Consensus pattern (31 bp):   
TTTTTACCATTTTACTATTTTAATTAAATTT
Done.