Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01009567.1 Hibiscus syriacus cultivar Beakdansim tig00116926_pilon, 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: 158088
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33


File 2 of 2

Found at i:153339 original size:2 final size:2

Alignment explanation


    Indices: 153332--153361  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

     153322 AAAGAAATGA

                                                        
     153332 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

     153362 GGAATCACAC


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00


Consensus pattern (2 bp):   
AG

Found at i:156288 original size:16 final size:15

Alignment explanation


    Indices: 156267--156310  Score: 52
    Period size: 16  Copynumber: 2.8  Consensus size: 15

     156257 GTTTATTTTT

                            
     156267 TATTTTTAAAATAAAA
          1 TATTTTTAAAA-AAAA

                   *     * 
     156283 TATTTTTTAAAAATA
          1 TATTTTTAAAAAAAA

                         
     156298 TATTTTTTAAAAA
          1 TA-TTTTTAAAAA

     156311 TCTAAACATG


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  15    5  0.21
  16   19  0.79

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (15 bp):   
TATTTTTAAAAAAAA

Found at i:156300 original size:15 final size:15

Alignment explanation


    Indices: 156267--156311  Score: 63
    Period size: 15  Copynumber: 2.9  Consensus size: 15

     156257 GTTTATTTTT

                   *      * 
     156267 TATTTTTAAAATAAAA
          1 TATTTTTTAAA-AATA

                           
     156283 TATTTTTTAAAAATA
          1 TATTTTTTAAAAATA

                          
     156298 TATTTTTTAAAAAT
          1 TATTTTTTAAAAAT

     156312 CTAAACATGA


Statistics
Matches: 27,  Mismatches: 2, Indels: 1
        0.90            0.07        0.03

Matches are distributed among these distances:
  15   17  0.63
  16   10  0.37

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (15 bp):   
TATTTTTTAAAAATA

Done.