Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007062.1 Corchorus capsularis cultivar CVL-1 contig07083, 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: 26922
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32


Found at i:3739 original size:12 final size:12

Alignment explanation


    Indices: 3718--3757  Score: 62
    Period size: 12  Copynumber: 3.3  Consensus size: 12

       3708 GTTGTGGCCG

                 *      
       3718 GTTGCCCCATGC
          1 GTTGCTCCATGC

                        
       3730 GTTGCTCCATGC
          1 GTTGCTCCATGC

             *          
       3742 GATGCTCCATGC
          1 GTTGCTCCATGC

                
       3754 GTTG
          1 GTTG

       3758 GCCGGTCATG


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  12   25  1.00

ACGTcount: A:0.10, C:0.33, G:0.28, T:0.30


Consensus pattern (12 bp):   
GTTGCTCCATGC

Found at i:4930 original size:21 final size:20

Alignment explanation


    Indices: 4891--4935  Score: 54
    Period size: 20  Copynumber: 2.2  Consensus size: 20

       4881 AATTATCAAA

                  *       *     
       4891 TAAAAAGAAAGCAATTAAAC
          1 TAAAAACAAAGCAAGTAAAC

                                *
       4911 TAAAAACAAAGCAAAGTAAAT
          1 TAAAAACAAAGC-AAGTAAAC

                
       4932 TAAA
          1 TAAA

       4936 TCTAAATCTA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  20   11  0.52
  21   10  0.48

ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16


Consensus pattern (20 bp):   
TAAAAACAAAGCAAGTAAAC

Found at i:10021 original size:21 final size:20

Alignment explanation


    Indices: 9982--10026  Score: 54
    Period size: 20  Copynumber: 2.2  Consensus size: 20

       9972 AATTATCAAA

                  *       *     
       9982 TAAAAAGAAAGCAATTAAAC
          1 TAAAAACAAAGCAAGTAAAC

                                *
      10002 TAAAAACAAAGCAAAGTAAAT
          1 TAAAAACAAAGC-AAGTAAAC

                
      10023 TAAA
          1 TAAA

      10027 TCTAAATCTA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  20   11  0.52
  21   10  0.48

ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16


Consensus pattern (20 bp):   
TAAAAACAAAGCAAGTAAAC
Done.