Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011259.1 Corchorus capsularis cultivar CVL-1 contig11280, 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: 3769
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28


Found at i:2499 original size:5 final size:5

Alignment explanation


    Indices: 2478--2518  Score: 66
    Period size: 5  Copynumber: 8.4  Consensus size: 5

       2468 CATGAATGGT

                           *                                  
       2478 ATAAA A-AAA ATAGA ATAAA ATAAA ATAAA ATAAA ATAAA AT
          1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT

       2519 CATGGGTTGC


Statistics
Matches: 33,  Mismatches: 2, Indels: 2
        0.89            0.05        0.05

Matches are distributed among these distances:
   4    4  0.12
   5   29  0.88

ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20


Consensus pattern (5 bp):   
ATAAA

Found at i:3640 original size:18 final size:19

Alignment explanation


    Indices: 3619--3662  Score: 54
    Period size: 19  Copynumber: 2.3  Consensus size: 19

       3609 CAAAATTAAC

                               
       3619 AAAAACAC-AAAAACAAAA
          1 AAAAACACGAAAAACAAAA

                 *        *    
       3637 AAAAATACGAAAAATAAAA
          1 AAAAACACGAAAAACAAAA

                   
       3656 ACAAAAC
          1 A-AAAAC

       3663 TAAAGGAAAG


Statistics
Matches: 21,  Mismatches: 3, Indels: 2
        0.81            0.12        0.08

Matches are distributed among these distances:
  18    7  0.33
  19   10  0.48
  20    4  0.19

ACGTcount: A:0.80, C:0.14, G:0.02, T:0.05


Consensus pattern (19 bp):   
AAAAACACGAAAAACAAAA
Done.