Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011586.1 Corchorus capsularis cultivar CVL-1 contig11607, 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: 4866
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27


Found at i:4655 original size:25 final size:25

Alignment explanation


    Indices: 4617--4694  Score: 80
    Period size: 25  Copynumber: 3.3  Consensus size: 25

       4607 AAAATTCAAA

                    *                 
       4617 ATAAAGTAAAAACTACCCATTAGAGG
          1 ATAAA-TATAAACTACCCATTAGAGG

                                      
       4643 ATAAATATAAACTACCCATCT-----
          1 ATAAATATAAACTACCCAT-TAGAGG

                                     
       4664 -TAAATA-AAACTACCCATTAGAGG
          1 ATAAATATAAACTACCCATTAGAGG

                    
       4687 ATAAATAT
          1 ATAAATAT

       4695 GATATTTAAA


Statistics
Matches: 43,  Mismatches: 1, Indels: 17
        0.70            0.02        0.28

Matches are distributed among these distances:
  18    1  0.02
  19   11  0.26
  20    6  0.14
  24    6  0.14
  25   13  0.30
  26    6  0.14

ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24


Consensus pattern (25 bp):   
ATAAATATAAACTACCCATTAGAGG

Found at i:4839 original size:2 final size:2

Alignment explanation


    Indices: 4832--4866  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       4822 CCCTGTGTCT

                                                                
       4832 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

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


Consensus pattern (2 bp):   
TA

Done.