Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001946.1 Corchorus capsularis cultivar CVL-1 contig01948, 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: 1862
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.42


Found at i:325 original size:2 final size:2

Alignment explanation


    Indices: 318--347  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

        308 ATTAATAAAC

                                                        
        318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

        348 AGTATGAGTT


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

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:623 original size:82 final size:80

Alignment explanation


    Indices: 465--631  Score: 250
    Period size: 82  Copynumber: 2.1  Consensus size: 80

        455 TATATTTTTA

                                                                             
        465 TTTAATTAAATCTAATTCTTTATAACTATTTTATTTTTACCATTTTACTATTTTAATTGAAAAAA
          1 TTTAATTAAATCTAATTCTTTATAACTATTTTATTTTTACCATTTTACTATTTTAATT-AAAAAA

                            
        530 ACTTAAGATATATTAT
         65 ACTTAAGATATATTAT

                                                       *                  * *
        546 TTTAATTAAATCTAATCTCTTTATAACTATTTTATTTTTACCTTTTTTACTATTTTAATT-ACAT
          1 TTTAATTAAATCTAAT-TCTTTATAACTATTTTATTTTTACC-ATTTTACTATTTTAATTAAAAA

                             
        610 AACTT-AGATATA-TAT
         64 AACTTAAGATATATTAT

             *     
        625 TATAATT
          1 TTTAATT

        632 TTTTAAATAT


Statistics
Matches: 80,  Mismatches: 4, Indels: 6
        0.89            0.04        0.07

Matches are distributed among these distances:
  79    9  0.11
  80    7  0.09
  81   23  0.29
  82   25  0.31
  83   16  0.20

ACGTcount: A:0.36, C:0.10, G:0.02, T:0.53


Consensus pattern (80 bp):   
TTTAATTAAATCTAATTCTTTATAACTATTTTATTTTTACCATTTTACTATTTTAATTAAAAAAA
CTTAAGATATATTAT
Done.