Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004254.1 Corchorus capsularis cultivar CVL-1 contig04262, 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, 667

Length: 1112
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:164 original size:13 final size:14

Alignment explanation


    Indices: 141--179  Score: 53
    Period size: 13  Copynumber: 2.8  Consensus size: 14

        131 TTTCCCGCCT

                        * 
        141 TTTTTTATTTTANA
          1 TTTTTTATTTTATA

                          
        155 TTTTTT-TTTTATA
          1 TTTTTTATTTTATA

                        
        168 TTTTTCTATTTT
          1 TTTTT-TATTTT

        180 CTTTCTTTTT


Statistics
Matches: 22,  Mismatches: 1, Indels: 3
        0.85            0.04        0.12

Matches are distributed among these distances:
  13   11  0.50
  14    7  0.32
  15    4  0.18

ACGTcount: A:0.15, C:0.03, G:0.00, T:0.79


Consensus pattern (14 bp):   
TTTTTTATTTTATA

Found at i:717 original size:14 final size:14

Alignment explanation


    Indices: 698--736  Score: 78
    Period size: 14  Copynumber: 2.8  Consensus size: 14

        688 TGTTTTACAT

                          
        698 TAATTATAATTAAA
          1 TAATTATAATTAAA

                          
        712 TAATTATAATTAAA
          1 TAATTATAATTAAA

                       
        726 TAATTATAATT
          1 TAATTATAATT

        737 TTATTTATAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   25  1.00

ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46


Consensus pattern (14 bp):   
TAATTATAATTAAA

Found at i:761 original size:19 final size:20

Alignment explanation


    Indices: 734--772  Score: 62
    Period size: 19  Copynumber: 2.0  Consensus size: 20

        724 AATAATTATA

                *               
        734 ATTTTATTTATAATT-TTCT
          1 ATTTAATTTATAATTGTTCT

                                
        753 ATTTAATTTATAATTGTTCT
          1 ATTTAATTTATAATTGTTCT

        773 TGAAGTTGAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  19   14  0.78
  20    4  0.22

ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64


Consensus pattern (20 bp):   
ATTTAATTTATAATTGTTCT
Done.