Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003640.1 Corchorus capsularis cultivar CVL-1 contig03648, 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, 720

Length: 1200
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31


Found at i:718 original size:23 final size:23

Alignment explanation


    Indices: 692--752  Score: 79
    Period size: 23  Copynumber: 2.6  Consensus size: 23

        682 AATCTGATGA

                                    
        692 GTATTTGAATATTTGGATATTT-G
          1 GTATTTGAATATTTGG-TATTTGG

                   *               
        715 GTATTTGGATATTTGGTATTTGG
          1 GTATTTGAATATTTGGTATTTGG

                           
        738 GTATGTATGAATATT
          1 GTAT-T-TGAATATT

        753 CTAAGTATTT


Statistics
Matches: 33,  Mismatches: 2, Indels: 4
        0.85            0.05        0.10

Matches are distributed among these distances:
  22    5  0.15
  23   20  0.61
  24    1  0.03
  25    7  0.21

ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51


Consensus pattern (23 bp):   
GTATTTGAATATTTGGTATTTGG

Found at i:721 original size:7 final size:8

Alignment explanation


    Indices: 693--737  Score: 67
    Period size: 8  Copynumber: 5.9  Consensus size: 8

        683 ATCTGATGAG

                  * 
        693 TATTTGAA
          1 TATTTGGA

                    
        701 TATTTGGA
          1 TATTTGGA

                    
        709 TATTTGG-
          1 TATTTGGA

                    
        716 TATTTGGA
          1 TATTTGGA

                    
        724 TATTTGG-
          1 TATTTGGA

                   
        731 TATTTGG
          1 TATTTGG

        738 GTATGTATGA


Statistics
Matches: 35,  Mismatches: 1, Indels: 3
        0.90            0.03        0.08

Matches are distributed among these distances:
   7   14  0.40
   8   21  0.60

ACGTcount: A:0.22, C:0.00, G:0.24, T:0.53


Consensus pattern (8 bp):   
TATTTGGA

Found at i:721 original size:15 final size:15

Alignment explanation


    Indices: 701--737  Score: 74
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        691 AGTATTTGAA

                           
        701 TATTTGGATATTTGG
          1 TATTTGGATATTTGG

                           
        716 TATTTGGATATTTGG
          1 TATTTGGATATTTGG

                   
        731 TATTTGG
          1 TATTTGG

        738 GTATGTATGA


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   22  1.00

ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54


Consensus pattern (15 bp):   
TATTTGGATATTTGG

Done.