Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009455.1 Corchorus capsularis cultivar CVL-1 contig09476, 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: 3597
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33


Found at i:521 original size:30 final size:29

Alignment explanation


    Indices: 485--562  Score: 97
    Period size: 30  Copynumber: 2.7  Consensus size: 29

        475 GGTGATCTTA

                      *                   
        485 AAAAAATGACTAAAATGCCCTCCTGAGTGC
          1 AAAAAATGACCAAAATGCCC-CCTGAGTGC

                       *            *    
        515 AAAAAATGACCGAAATG-CCCCTGGGTGC
          1 AAAAAATGACCAAAATGCCCCCTGAGTGC

             *                   
        543 -GAAAATGACCAAAATGCCCC
          1 AAAAAATGACCAAAATGCCCC

        563 TGGGCGACTC


Statistics
Matches: 42,  Mismatches: 5, Indels: 4
        0.82            0.10        0.08

Matches are distributed among these distances:
  27   14  0.33
  28   11  0.26
  29    2  0.05
  30   15  0.36

ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15


Consensus pattern (29 bp):   
AAAAAATGACCAAAATGCCCCCTGAGTGC

Found at i:557 original size:27 final size:28

Alignment explanation


    Indices: 485--566  Score: 103
    Period size: 27  Copynumber: 2.9  Consensus size: 28

        475 GGTGATCTTA

                      *              *    
        485 AAAAAATGACTAAAATGCCCTCCTGAGTGC
          1 AAAAAATGACCAAAATG-CC-CCTGGGTGC

                       *                
        515 AAAAAATGACCGAAATGCCCCTGGGTGC
          1 AAAAAATGACCAAAATGCCCCTGGGTGC

             *                       
        543 -GAAAATGACCAAAATGCCCCTGGG
          1 AAAAAATGACCAAAATGCCCCTGGG

        567 CGACTCTAAT


Statistics
Matches: 47,  Mismatches: 5, Indels: 3
        0.85            0.09        0.05

Matches are distributed among these distances:
  27   22  0.47
  28    8  0.17
  29    2  0.04
  30   15  0.32

ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16


Consensus pattern (28 bp):   
AAAAAATGACCAAAATGCCCCTGGGTGC
Done.