Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016659.1 Corchorus olitorius cultivar O-4 contig16692, 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: 2132
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--91  Score: 182
    Period size: 2  Copynumber: 45.5  Consensus size: 2

                                                                          
          1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
          1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT

                                                                          
         43 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
          1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT

                      
         85 CT CT CT C
          1 CT CT CT C

         92 ATACCTTTTG


Statistics
Matches: 89,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   89  1.00

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


Consensus pattern (2 bp):   
CT

Found at i:672 original size:4 final size:4

Alignment explanation


    Indices: 663--699  Score: 67
    Period size: 4  Copynumber: 9.5  Consensus size: 4

        653 AGTAAGATTA

                                                           
        663 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT-T TTCT TT
          1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT

        700 TTTTTTTCAC


Statistics
Matches: 32,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   3    3  0.09
   4   29  0.91

ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78


Consensus pattern (4 bp):   
TTCT

Found at i:1540 original size:2 final size:2

Alignment explanation


    Indices: 1533--1557  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       1523 GAAACCAATC

                                                 
       1533 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 T

       1558 TTAAAAAAGA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

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


Consensus pattern (2 bp):   
TA

Done.