Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001980.1 Corchorus capsularis cultivar CVL-1 contig01983, 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: 1944
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33


Found at i:1726 original size:2 final size:2

Alignment explanation


    Indices: 1715--1772  Score: 68
    Period size: 2  Copynumber: 29.5  Consensus size: 2

       1705 TAATTTTCCT

                                                           *               
       1715 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA CTG 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

                                      
       1756 GTA TA TA TA TA T- TA TA T
          1 -TA TA TA TA TA TA TA TA T

       1773 GAAATATGAA


Statistics
Matches: 49,  Mismatches: 2, Indels: 10
        0.80            0.03        0.16

Matches are distributed among these distances:
   1    3  0.06
   2   43  0.88
   3    3  0.06

ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:1743 original size:23 final size:23

Alignment explanation


    Indices: 1715--1772  Score: 73
    Period size: 23  Copynumber: 2.5  Consensus size: 23

       1705 TAATTTTCCT

                                    
       1715 TATATAATATATATATATA-TATA
          1 TATATAATATATATAT-TAGTATA

                  * *              
       1738 TATATACTGTATATATTAGTATA
          1 TATATAATATATATATTAGTATA

                  *     
       1761 TATATATTATAT
          1 TATATAATATAT

       1773 GAAATATGAA


Statistics
Matches: 30,  Mismatches: 4, Indels: 2
        0.83            0.11        0.06

Matches are distributed among these distances:
  22    2  0.07
  23   28  0.93

ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50


Consensus pattern (23 bp):   
TATATAATATATATATTAGTATA
Done.