Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014121.1 Corchorus capsularis cultivar CVL-1 contig14142, 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: 9331
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:4397 original size:14 final size:14

Alignment explanation


    Indices: 4378--4412  Score: 52
    Period size: 14  Copynumber: 2.5  Consensus size: 14

       4368 TTTTTATCGA

                          
       4378 CGCAAAATTTTTTT
          1 CGCAAAATTTTTTT

                  *       
       4392 CGCAAACTTTTTTT
          1 CGCAAAATTTTTTT

              *    
       4406 CGGAAAA
          1 CGCAAAA

       4413 ACGGAACAAA


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40


Consensus pattern (14 bp):   
CGCAAAATTTTTTT

Found at i:5742 original size:10 final size:10

Alignment explanation


    Indices: 5727--5752  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       5717 GAGGACTCTA

                      
       5727 GAATTTTCTG
          1 GAATTTTCTG

                      
       5737 GAATTTTCTG
          1 GAATTTTCTG

                  
       5747 GAATTT
          1 GAATTT

       5753 GGCAGCAACT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50


Consensus pattern (10 bp):   
GAATTTTCTG

Found at i:7054 original size:21 final size:21

Alignment explanation


    Indices: 7010--7055  Score: 56
    Period size: 21  Copynumber: 2.2  Consensus size: 21

       7000 CCAAGGCACA

                         *     * 
       7010 TGGGTGCCCAGGCCAACCGGC
          1 TGGGTGCCCAGGCAAACCGCC

                   *        *    
       7031 TGGGTGCGCAGGCAAAGCGCC
          1 TGGGTGCCCAGGCAAACCGCC

                
       7052 TGGG
          1 TGGG

       7056 CGCACAGCCA


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.15, C:0.30, G:0.43, T:0.11


Consensus pattern (21 bp):   
TGGGTGCCCAGGCAAACCGCC
Done.