Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014235.1 Corchorus olitorius cultivar O-4 contig14268, 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: 8672
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32


Found at i:1473 original size:18 final size:18

Alignment explanation


    Indices: 1450--1485  Score: 72
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       1440 GGTGTTTCAA

                              
       1450 ATAATATGTAGTATATAT
          1 ATAATATGTAGTATATAT

                              
       1468 ATAATATGTAGTATATAT
          1 ATAATATGTAGTATATAT

       1486 TCCCCCCTCT


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44


Consensus pattern (18 bp):   
ATAATATGTAGTATATAT

Found at i:2752 original size:20 final size:20

Alignment explanation


    Indices: 2727--2765  Score: 53
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       2717 GTGGCATTGT

                                 
       2727 GCCATG-AAGGCAATTTTTGG
          1 GCCATGTAA-GCAATTTTTGG

                   *           
       2747 GCCATGTTAGCAATTTTTG
          1 GCCATGTAAGCAATTTTTG

       2766 ATGACCCAGA


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20   16  0.94
  21    1  0.06

ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36


Consensus pattern (20 bp):   
GCCATGTAAGCAATTTTTGG

Found at i:8635 original size:2 final size:2

Alignment explanation


    Indices: 8630--8672  Score: 86
    Period size: 2  Copynumber: 21.5  Consensus size: 2

       8620 CTCAAACTGC

                                                                          
       8630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

             
       8672 A
          1 A


Statistics
Matches: 41,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   41  1.00

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


Consensus pattern (2 bp):   
AT

Done.