Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000850.1 Corchorus olitorius cultivar O-4 contig00850, 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, 789

Length: 1316
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41


Found at i:650 original size:2 final size:2

Alignment explanation


    Indices: 643--690  Score: 57
    Period size: 2  Copynumber: 24.5  Consensus size: 2

        633 TGTATGTATG

                                                                           
        643 TA TA TA TA TA TA TA TA TA TA TA T- TA GTA T- TA TA TA TA T- TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA

                       
        683 GTA TA TA T
          1 -TA TA TA T

        691 GGTTGAATAA


Statistics
Matches: 41,  Mismatches: 0, Indels: 10
        0.80            0.00        0.20

Matches are distributed among these distances:
   1    3  0.07
   2   34  0.83
   3    4  0.10

ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:768 original size:29 final size:29

Alignment explanation


    Indices: 726--789  Score: 92
    Period size: 29  Copynumber: 2.2  Consensus size: 29

        716 TAATCATTAA

                  *          * *         
        726 AATTCCGTCTACCAATATATGTGCTACAT
          1 AATTCCATCTACCAATAAACGTGCTACAT

                                      *  
        755 AATTCCATCTACCAATAAACGTGCTATAT
          1 AATTCCATCTACCAATAAACGTGCTACAT

                  
        784 AATTCC
          1 AATTCC

        790 TTATAAATCT


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  29   31  1.00

ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33


Consensus pattern (29 bp):   
AATTCCATCTACCAATAAACGTGCTACAT
Done.