Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006165.1 Corchorus capsularis cultivar CVL-1 contig06183, 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: 17103
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:10698 original size:9 final size:10

Alignment explanation


    Indices: 10673--10701  Score: 51
    Period size: 10  Copynumber: 3.0  Consensus size: 10

      10663 CTGCAAGGAA

                      
      10673 GCATGGAGAT
          1 GCATGGAGAT

                      
      10683 GCATGGAGAT
          1 GCATGGAGAT

                      
      10693 -CATGGAGAT
          1 GCATGGAGAT

      10702 ATCGATAAGC


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
   9    9  0.47
  10   10  0.53

ACGTcount: A:0.31, C:0.10, G:0.38, T:0.21


Consensus pattern (10 bp):   
GCATGGAGAT

Found at i:12416 original size:3 final size:3

Alignment explanation


    Indices: 12408--12442  Score: 61
    Period size: 3  Copynumber: 11.7  Consensus size: 3

      12398 TCATTTCCCC

                                              *           
      12408 CAT CAT CAT CAT CAT CAT CAT CAT CAG CAT CAT CA
          1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA

      12443 CATTTTCCGT


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   3   30  1.00

ACGTcount: A:0.34, C:0.34, G:0.03, T:0.29


Consensus pattern (3 bp):   
CAT

Found at i:14418 original size:2 final size:2

Alignment explanation


    Indices: 14411--14439  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

      14401 ATTCAACGTG

                                                       
      14411 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 T

      14440 TATCTAACAA


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

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.