Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014117.1 Corchorus capsularis cultivar CVL-1 contig14138, 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: 9360
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Found at i:537 original size:33 final size:33

Alignment explanation


    Indices: 477--584  Score: 103
    Period size: 33  Copynumber: 3.3  Consensus size: 33

        467 GTCGCGCAAC

                        *  *  **  *           
        477 ACCGGCCACATGTTTTGGAGATGCCCGGCCATC-
          1 ACCGGCCACATGCTTCGGCCATACCCGGCCA-CA

                  *                           
        510 ACCGGCTACATGAC-TCGGCCATACCCGGCCACA
          1 ACCGGCCACATG-CTTCGGCCATACCCGGCCACA

                               *  *          
        543 ACCGGCCACATGCTTCGGCTATGCCCGGCCACA
          1 ACCGGCCACATGCTTCGGCCATACCCGGCCACA

               *     
        576 ACCAGCCAC
          1 ACCGGCCAC

        585 TTGATCCTTT


Statistics
Matches: 62,  Mismatches: 10, Indels: 6
        0.79            0.13        0.08

Matches are distributed among these distances:
  32    2  0.03
  33   60  0.97

ACGTcount: A:0.21, C:0.41, G:0.23, T:0.15


Consensus pattern (33 bp):   
ACCGGCCACATGCTTCGGCCATACCCGGCCACA

Found at i:3698 original size:9 final size:9

Alignment explanation


    Indices: 3684--3717  Score: 52
    Period size: 9  Copynumber: 3.8  Consensus size: 9

       3674 TCTGGTCGAA

                     
       3684 ATTTTTTTT
          1 ATTTTTTTT

                     
       3693 A-TTTTTTT
          1 ATTTTTTTT

                     
       3701 ATTTTTTTT
          1 ATTTTTTTT

                    
       3710 ATATTTTT
          1 AT-TTTTT

       3718 CGATATAGCT


Statistics
Matches: 23,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
   8    8  0.35
   9   10  0.43
  10    5  0.22

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (9 bp):   
ATTTTTTTT

Found at i:3706 original size:17 final size:18

Alignment explanation


    Indices: 3684--3717  Score: 61
    Period size: 17  Copynumber: 1.9  Consensus size: 18

       3674 TCTGGTCGAA

                              
       3684 ATTTTTTTTAT-TTTTTT
          1 ATTTTTTTTATATTTTTT

                             
       3701 ATTTTTTTTATATTTTT
          1 ATTTTTTTTATATTTTT

       3718 CGATATAGCT


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  17   11  0.69
  18    5  0.31

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (18 bp):   
ATTTTTTTTATATTTTTT
Done.