Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003711.1 Corchorus capsularis cultivar CVL-1 contig03719, 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: 1825
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37

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


Found at i:132 original size:22 final size:22

Alignment explanation


    Indices: 41--134  Score: 77
    Period size: 22  Copynumber: 4.3  Consensus size: 22

         31 TTCACACTAA

                               *   
         41 GGTTATCAAAATTTT-ATAGTGT
          1 GGTTATC-AAATTTTCATAATGT

            *                  * *
         63 CGTTATCAAATTTTCATAAAGA
          1 GGTTATCAAATTTTCATAATGT

                          *        
         85 GGTTATCGAAA-TTCCATAAT-T
          1 GGTTATC-AAATTTTCATAATGT

                             * *   
        106 AGGTTATCAAATTTTCACAGTGT
          1 -GGTTATCAAATTTTCATAATGT

                  
        129 GGTTAT
          1 GGTTAT

        135 TAATATTTCT


Statistics
Matches: 56,  Mismatches: 11, Indels: 10
        0.73            0.14        0.13

Matches are distributed among these distances:
  21   10  0.18
  22   42  0.75
  23    4  0.07

ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40


Consensus pattern (22 bp):   
GGTTATCAAATTTTCATAATGT

Found at i:1470 original size:25 final size:25

Alignment explanation


    Indices: 1434--1486  Score: 88
    Period size: 25  Copynumber: 2.1  Consensus size: 25

       1424 CCCAATAACT

                   *                 
       1434 TTTAGGATTTTGAACAAATTTAATC
          1 TTTAGGACTTTGAACAAATTTAATC

                        *            
       1459 TTTAGGACTTTGGACAAATTTAATC
          1 TTTAGGACTTTGAACAAATTTAATC

               
       1484 TTT
          1 TTT

       1487 TCAAAATTAA


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  25   26  1.00

ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45


Consensus pattern (25 bp):   
TTTAGGACTTTGAACAAATTTAATC
Done.