Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010002.1 Corchorus olitorius cultivar O-4 contig10034, 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: 9480
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36


Found at i:4130 original size:15 final size:15

Alignment explanation


    Indices: 4110--4138  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

       4100 TCGGCTGTAG

                           
       4110 GCTGATTATCAGGCA
          1 GCTGATTATCAGGCA

                          
       4125 GCTGATTATCAGGC
          1 GCTGATTATCAGGC

       4139 TGTATTTCTT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28


Consensus pattern (15 bp):   
GCTGATTATCAGGCA

Found at i:6670 original size:31 final size:31

Alignment explanation


    Indices: 6514--6685  Score: 148
    Period size: 31  Copynumber: 5.5  Consensus size: 31

       6504 TCCTTTTGTG

                    *                    ** 
       6514 CACGTGGCATGCCACGTGTCACTTTTTTGAAA
          1 CACGTGGCGTGCCACGTGTCAC-TTTTTGGTA

                 *  *       *           ** 
       6546 CACG-CGCATGCCACGGGTCACTTTTTGAAA
          1 CACGTGGCGTGCCACGTGTCACTTTTTGGTA

               *  * *                      
       6576 CACATGTCATGCCACGTGTCACTTTTTGGTA
          1 CACGTGGCGTGCCACGTGTCACTTTTTGGTA

               *       **           *  *   
       6607 CACATGGCGTGATACGTGTCACTTGTTAGTA
          1 CACGTGGCGTGCCACGTGTCACTTTTTGGTA

              *            *    *          
       6638 CATGTGGCGTGCCACATGTCGCTTTTTGGTA
          1 CACGTGGCGTGCCACGTGTCACTTTTTGGTA

                    *        
       6669 CACGTGGCATGCCACGT
          1 CACGTGGCGTGCCACGT

       6686 CGGACACCGT


Statistics
Matches: 114,  Mismatches: 25, Indels: 3
        0.80            0.18        0.02

Matches are distributed among these distances:
  30   12  0.11
  31   98  0.86
  32    4  0.04

ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30


Consensus pattern (31 bp):   
CACGTGGCGTGCCACGTGTCACTTTTTGGTA
Done.