Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014629.1 Corchorus capsularis cultivar CVL-1 contig14650, 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: 23910
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:3987 original size:15 final size:15

Alignment explanation


    Indices: 3964--3993  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       3954 ATCGGTTGAA

                *          
       3964 ATATTGTGTATCGTG
          1 ATATCGTGTATCGTG

                           
       3979 ATATCGTGTATCGTG
          1 ATATCGTGTATCGTG

       3994 GCAGCCTGAT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43


Consensus pattern (15 bp):   
ATATCGTGTATCGTG

Found at i:23137 original size:22 final size:22

Alignment explanation


    Indices: 23112--23157  Score: 74
    Period size: 22  Copynumber: 2.1  Consensus size: 22

      23102 TTTTTTAACC

                                  
      23112 TAACATTGAATAAGAAGAATGG
          1 TAACATTGAATAAGAAGAATGG

                *             *   
      23134 TAACCTTGAATAAGAAGATTGG
          1 TAACATTGAATAAGAAGAATGG

              
      23156 TA
          1 TA

      23158 TAACCTTCTT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26


Consensus pattern (22 bp):   
TAACATTGAATAAGAAGAATGG

Found at i:23593 original size:7 final size:8

Alignment explanation


    Indices: 23576--23604  Score: 58
    Period size: 8  Copynumber: 3.6  Consensus size: 8

      23566 AAAAGTTGTG

                    
      23576 TTTTTATT
          1 TTTTTATT

                    
      23584 TTTTTATT
          1 TTTTTATT

                    
      23592 TTTTTATT
          1 TTTTTATT

                 
      23600 TTTTT
          1 TTTTT

      23605 GCAAATGAAG


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   8   21  1.00

ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90


Consensus pattern (8 bp):   
TTTTTATT
Done.