Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013349.1 Corchorus capsularis cultivar CVL-1 contig13370, 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: 3760
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32


Found at i:1722 original size:6 final size:6

Alignment explanation


    Indices: 1711--1737  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       1701 AAAGCAAAGC

                                           
       1711 AAATCT AAATCT AAATCT AAATCT AAA
          1 AAATCT AAATCT AAATCT AAATCT AAA

       1738 GCAGATTAAT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30


Consensus pattern (6 bp):   
AAATCT

Found at i:1752 original size:13 final size:13

Alignment explanation


    Indices: 1734--1768  Score: 61
    Period size: 13  Copynumber: 2.7  Consensus size: 13

       1724 AATCTAAATC

                   *     
       1734 TAAAGCAGATTAA
          1 TAAAGCAAATTAA

                         
       1747 TAAAGCAAATTAA
          1 TAAAGCAAATTAA

                     
       1760 TAAAGCAAA
          1 TAAAGCAAA

       1769 CAATAATTAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  13   21  1.00

ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20


Consensus pattern (13 bp):   
TAAAGCAAATTAA

Found at i:2695 original size:10 final size:10

Alignment explanation


    Indices: 2680--2705  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       2670 GAGGACTCTA

                      
       2680 GAATTTTCTG
          1 GAATTTTCTG

                      
       2690 GAATTTTCTG
          1 GAATTTTCTG

                  
       2700 GAATTT
          1 GAATTT

       2706 AGCAGCAACT


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.