Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010974.1 Corchorus capsularis cultivar CVL-1 contig10995, 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: 22675
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33


Found at i:6689 original size:22 final size:21

Alignment explanation


    Indices: 6656--6704  Score: 73
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       6646 AAATTAGAAG

                                  
       6656 AGATA-CCATTAAATAAAATAC
          1 AGATACCCATTAAAT-AAATAC

                             *   
       6677 AGATACCCATTAAATAAGTAC
          1 AGATACCCATTAAATAAATAC

                   
       6698 AGATACC
          1 AGATACC

       6705 AAACAATACA


Statistics
Matches: 26,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  21   17  0.65
  22    9  0.35

ACGTcount: A:0.51, C:0.18, G:0.08, T:0.22


Consensus pattern (21 bp):   
AGATACCCATTAAATAAATAC

Found at i:11510 original size:11 final size:11

Alignment explanation


    Indices: 11496--11533  Score: 51
    Period size: 11  Copynumber: 3.5  Consensus size: 11

      11486 ATTCATAACA

                       
      11496 AATTTATAATT
          1 AATTTATAATT

                       
      11507 AATTTATAATT
          1 AATTTATAATT

                        
      11518 -ATTTGATAATT
          1 AATTT-ATAATT

            *    
      11529 TATTT
          1 AATTT

      11534 TATATAGAAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  10    4  0.16
  11   17  0.68
  12    4  0.16

ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58


Consensus pattern (11 bp):   
AATTTATAATT

Found at i:18571 original size:8 final size:8

Alignment explanation


    Indices: 18558--18591  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

      18548 CACCTTCTTG

                    
      18558 AAAAATTC
          1 AAAAATTC

                    
      18566 AAAAATTC
          1 AAAAATTC

                 *   
      18574 AGAAACTTC
          1 A-AAAATTC

                    
      18583 AAAAATTC
          1 AAAAATTC

             
      18591 A
          1 A

      18592 TAGCCAATTC


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24


Consensus pattern (8 bp):   
AAAAATTC
Done.