Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003083.1 Corchorus capsularis cultivar CVL-1 contig03091, 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, 790

Length: 1317
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32


Found at i:59 original size:20 final size:20

Alignment explanation


    Indices: 22--60  Score: 53
    Period size: 20  Copynumber: 1.9  Consensus size: 20

         12 GAAAAGAAAT

                         *      
         22 AAAAAACAAAAAGGAAAAAG
          1 AAAAAACAAAAAGCAAAAAG

                                
         42 AAAAAACAACAAA-CAAAAA
          1 AAAAAACAA-AAAGCAAAAA

         61 AAATAAAAAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20   14  0.82
  21    3  0.18

ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00


Consensus pattern (20 bp):   
AAAAAACAAAAAGCAAAAAG

Found at i:62 original size:23 final size:23

Alignment explanation


    Indices: 8--70  Score: 65
    Period size: 23  Copynumber: 2.7  Consensus size: 23

          1 AGAAGAT

                *                   
          8 AAGAGAAAAGAAATAAAAAACAAA
          1 AAGAAAAAAGAAA-AAAAAACAAA

               *            *      
         32 AAGGAAAAAGAAAAAACAACAAA
          1 AAGAAAAAAGAAAAAAAAACAAA

                      *      
         55 CAA-AAAAAATAAAAAA
          1 -AAGAAAAAAGAAAAAA

         71 TAGCCAGCTG


Statistics
Matches: 33,  Mismatches: 5, Indels: 3
        0.80            0.12        0.07

Matches are distributed among these distances:
  23   20  0.61
  24   13  0.39

ACGTcount: A:0.81, C:0.06, G:0.10, T:0.03


Consensus pattern (23 bp):   
AAGAAAAAAGAAAAAAAAACAAA
Done.