Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001295.1 Corchorus olitorius cultivar O-4 contig01295, 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: 5880
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29


Found at i:1745 original size:2 final size:2

Alignment explanation


    Indices: 1740--1767  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       1730 AAAAAAAAAC

                                                     
       1740 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

       1768 AATACCACTA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:5655 original size:35 final size:34

Alignment explanation


    Indices: 5607--5676  Score: 88
    Period size: 36  Copynumber: 2.0  Consensus size: 34

       5597 ACCAAGACAA

                              *               
       5607 CAAATATCCCACCCG-CCTAAACACTAAACCCAT
          1 CAAATATCCCACCCGACCCAAACACTAAACCCAT

                                  * *           
       5640 CAAATATACCCCACCCGACCCATATACTAAACCCAT
          1 CAAATAT--CCCACCCGACCCAAACACTAAACCCAT

             
       5676 C
          1 C

       5677 TAAAAAAACA


Statistics
Matches: 31,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  33    7  0.23
  35    8  0.26
  36   16  0.52

ACGTcount: A:0.39, C:0.43, G:0.03, T:0.16


Consensus pattern (34 bp):   
CAAATATCCCACCCGACCCAAACACTAAACCCAT
Done.