Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007680.1 Corchorus capsularis cultivar CVL-1 contig07701, 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: 3961
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:3530 original size:8 final size:9

Alignment explanation


    Indices: 3500--3541  Score: 52
    Period size: 9  Copynumber: 4.9  Consensus size: 9

       3490 AAAAGAAGAA

                     
       3500 AGAAAAA-G
          1 AGAAAAATG

                     
       3508 AGAAAAATG
          1 AGAAAAATG

             *       
       3517 AAAAAAATG
          1 AGAAAAATG

                    *
       3526 -GAAAAATC
          1 AGAAAAATG

                    
       3534 AGAAAAAT
          1 AGAAAAAT

       3542 TAAAAGATGT


Statistics
Matches: 29,  Mismatches: 3, Indels: 3
        0.83            0.09        0.09

Matches are distributed among these distances:
   8   13  0.45
   9   16  0.55

ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10


Consensus pattern (9 bp):   
AGAAAAATG

Found at i:3539 original size:17 final size:18

Alignment explanation


    Indices: 3500--3541  Score: 52
    Period size: 17  Copynumber: 2.4  Consensus size: 18

       3490 AAAAGAAGAA

                             *
       3500 AGAAAAA-GAGAAAAATG
          1 AGAAAAATGAGAAAAATC

             *                
       3517 AAAAAAATG-GAAAAATC
          1 AGAAAAATGAGAAAAATC

                    
       3534 AGAAAAAT
          1 AGAAAAAT

       3542 TAAAAGATGT


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

Matches are distributed among these distances:
  17   20  0.95
  18    1  0.05

ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10


Consensus pattern (18 bp):   
AGAAAAATGAGAAAAATC
Done.