Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018355.1 Corchorus olitorius cultivar O-4 contig18388, 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: 5839
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30


Found at i:3042 original size:20 final size:22

Alignment explanation


    Indices: 3017--3059  Score: 72
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       3007 AACTACATAT

                                  
       3017 ATTA-TTT-TATAATATAATAA
          1 ATTATTTTATATAATATAATAA

                                  
       3037 ATTATTTTATATAATATAATAA
          1 ATTATTTTATATAATATAATAA

             
       3059 A
          1 A

       3060 GAAATTAGAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  20    4  0.19
  21    3  0.14
  22   14  0.67

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (22 bp):   
ATTATTTTATATAATATAATAA

Found at i:3687 original size:21 final size:19

Alignment explanation


    Indices: 3662--3719  Score: 71
    Period size: 21  Copynumber: 2.9  Consensus size: 19

       3652 GCTGCTCTAA

                                 
       3662 TAATCTCATCTGTACAGTACC
          1 TAATCTCATCTGTACAGT--C

                  *           *
       3683 TAATCTAATCTGTACAGTG
          1 TAATCTCATCTGTACAGTC

                     *        
       3702 TAATCTCATATGTACAGT
          1 TAATCTCATCTGTACAGT

       3720 TGCTAAACAA


Statistics
Matches: 33,  Mismatches: 4, Indels: 2
        0.85            0.10        0.05

Matches are distributed among these distances:
  19   16  0.48
  21   17  0.52

ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36


Consensus pattern (19 bp):   
TAATCTCATCTGTACAGTC

Found at i:4843 original size:21 final size:20

Alignment explanation


    Indices: 4818--4875  Score: 73
    Period size: 21  Copynumber: 2.9  Consensus size: 20

       4808 GCTGCTCTAA

                                 
       4818 TAATCTCATCTGTACAGTACC
          1 TAATCTCATCTGTACAGT-CC

                  *    *      * 
       4839 TAATCTAATCTATACAGTGC
          1 TAATCTCATCTGTACAGTCC

                              
       4859 -AATCTCATCTGTACAGT
          1 TAATCTCATCTGTACAGT

       4876 TGCTAAACAG


Statistics
Matches: 32,  Mismatches: 5, Indels: 2
        0.82            0.13        0.05

Matches are distributed among these distances:
  19   15  0.47
  20    1  0.03
  21   16  0.50

ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34


Consensus pattern (20 bp):   
TAATCTCATCTGTACAGTCC
Done.