Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008926.1 Corchorus capsularis cultivar CVL-1 contig08947, 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: 5907
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29

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


Found at i:637 original size:22 final size:24

Alignment explanation


    Indices: 611--658  Score: 73
    Period size: 25  Copynumber: 2.0  Consensus size: 24

        601 ACGGAAAAGG

                                    
        611 AAAAC-TTTTTTTT-TCGACGCAA
          1 AAAACATTTTTTTTATCGACGCAA

                                     
        633 AAAACAATTTTTTTTATCGACGCAA
          1 AAAAC-ATTTTTTTTATCGACGCAA

             
        658 A
          1 A

        659 CTTTTTTTTA


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

Matches are distributed among these distances:
  22    5  0.22
  24    8  0.35
  25   10  0.43

ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38


Consensus pattern (24 bp):   
AAAACATTTTTTTTATCGACGCAA

Found at i:983 original size:6 final size:6

Alignment explanation


    Indices: 972--1001  Score: 51
    Period size: 6  Copynumber: 5.0  Consensus size: 6

        962 AAAGCAAAGC

                                  *           
        972 AAATCT AAATCT AAATCT ATATCT AAATCT
          1 AAATCT AAATCT AAATCT AAATCT AAATCT

       1002 GAACCAGAAT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37


Consensus pattern (6 bp):   
AAATCT

Found at i:1738 original size:10 final size:10

Alignment explanation


    Indices: 1723--1748  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       1713 GAGGACTCTA

                      
       1723 GAATTTTCTG
          1 GAATTTTCTG

                      
       1733 GAATTTTCTG
          1 GAATTTTCTG

                  
       1743 GAATTT
          1 GAATTT

       1749 GGCAGCAACT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50


Consensus pattern (10 bp):   
GAATTTTCTG
Done.