Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017713.1 Corchorus olitorius cultivar O-4 contig17746, 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: 8679
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31


Found at i:4200 original size:8 final size:9

Alignment explanation


    Indices: 4179--4208  Score: 53
    Period size: 9  Copynumber: 3.4  Consensus size: 9

       4169 ACTCATCACA

                     
       4179 ATCCAAACG
          1 ATCCAAACG

                     
       4188 ATCCAAA-G
          1 ATCCAAACG

                     
       4196 ATCCAAACG
          1 ATCCAAACG

                
       4205 ATCC
          1 ATCC

       4209 CATCAATGCA


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
   8    8  0.40
   9   12  0.60

ACGTcount: A:0.43, C:0.33, G:0.10, T:0.13


Consensus pattern (9 bp):   
ATCCAAACG

Found at i:8450 original size:18 final size:18

Alignment explanation


    Indices: 8427--8484  Score: 75
    Period size: 18  Copynumber: 3.3  Consensus size: 18

       8417 ACTAAGTCTG

                              
       8427 AATAGTTTTTTAATCTCT
          1 AATAGTTTTTTAATCTCT

                           *  *
       8445 AATAGTTTTTTCAA-GT-G
          1 AATAGTTTTTT-AATCTCT

                              
       8462 AATAGTTTTTTAATCTCT
          1 AATAGTTTTTTAATCTCT

                 
       8480 AATAG
          1 AATAG

       8485 AGAGAAGGTG


Statistics
Matches: 33,  Mismatches: 4, Indels: 6
        0.77            0.09        0.14

Matches are distributed among these distances:
  16    2  0.06
  17   12  0.36
  18   17  0.52
  19    2  0.06

ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50


Consensus pattern (18 bp):   
AATAGTTTTTTAATCTCT
Done.