Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009164.1 Corchorus capsularis cultivar CVL-1 contig09185, 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: 18515
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32


Found at i:8679 original size:10 final size:10

Alignment explanation


    Indices: 8664--8689  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       8654 AGTTGCTGCT

                      
       8664 AAATTCCAGA
          1 AAATTCCAGA

                      
       8674 AAATTCCAGA
          1 AAATTCCAGA

                  
       8684 AAATTC
          1 AAATTC

       8690 TAGAGTCCTC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23


Consensus pattern (10 bp):   
AAATTCCAGA

Found at i:9616 original size:6 final size:6

Alignment explanation


    Indices: 9605--9637  Score: 66
    Period size: 6  Copynumber: 5.5  Consensus size: 6

       9595 ATTAATCTGC

                                                  
       9605 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTT

       9638 GCTTTGCTTT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   27  1.00

ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55


Consensus pattern (6 bp):   
TTTAGA

Found at i:18410 original size:2 final size:2

Alignment explanation


    Indices: 18405--18455  Score: 102
    Period size: 2  Copynumber: 25.5  Consensus size: 2

      18395 CATTTACTAC

                                                                          
      18405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                         
      18447 TA TA TA TA T
          1 TA TA TA TA T

      18456 GTGTGTGTGT


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   49  1.00

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


Consensus pattern (2 bp):   
TA

Done.