Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013921.1 Corchorus capsularis cultivar CVL-1 contig13942, 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: 10402
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31


Found at i:4168 original size:15 final size:15

Alignment explanation


    Indices: 4145--4174  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       4135 TGGAATCCTA

                           
       4145 AAAAAAAAGAAAAAT
          1 AAAAAAAAGAAAAAT

                *          
       4160 AAAACAAAGAAAAAT
          1 AAAAAAAAGAAAAAT

       4175 TAAGGTTAGT


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:0.83, C:0.03, G:0.07, T:0.07


Consensus pattern (15 bp):   
AAAAAAAAGAAAAAT

Found at i:9550 original size:9 final size:9

Alignment explanation


    Indices: 9525--9567  Score: 68
    Period size: 9  Copynumber: 4.7  Consensus size: 9

       9515 GTTCGAAGAA

                     
       9525 GAGAAATTG
          1 GAGAAATTG

             *        
       9534 CAAGAAATTG
          1 -GAGAAATTG

                     
       9544 GAGAAATTG
          1 GAGAAATTG

                     
       9553 GAGAAATTG
          1 GAGAAATTG

                  
       9562 GAGAAA
          1 GAGAAA

       9568 GATTAATGTG


Statistics
Matches: 31,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
   9   23  0.74
  10    8  0.26

ACGTcount: A:0.49, C:0.02, G:0.30, T:0.19


Consensus pattern (9 bp):   
GAGAAATTG

Done.