Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01004990.1 Hibiscus syriacus cultivar Beakdansim tig00011202_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: 148483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


File 2 of 2

Found at i:148299 original size:32 final size:31

Alignment explanation


    Indices: 148257--148321  Score: 78
    Period size: 32  Copynumber: 2.1  Consensus size: 31

     148247 TTAATTTGAA

                 *         *                 
     148257 TTTTTCTTTTAAT-TCTTTTACTTATTTAATAT
          1 TTTTTATTTTAATATATTTTA-TTATTTAA-AT

                       *                   
     148289 TTTTTATTTTATTATATTTTATTATTTAAAT
          1 TTTTTATTTTAATATATTTTATTATTTAAAT

              
     148320 TT
          1 TT

     148322 ATTTTTGACC


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

Matches are distributed among these distances:
  31    4  0.14
  32   19  0.66
  33    6  0.21

ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71


Consensus pattern (31 bp):   
TTTTTATTTTAATATATTTTATTATTTAAAT

Found at i:148316 original size:17 final size:15

Alignment explanation


    Indices: 148272--148321  Score: 50
    Period size: 17  Copynumber: 3.2  Consensus size: 15

     148262 CTTTTAATTC

                            
     148272 TTTTACTTATTTAATA
          1 TTTTA-TTATTTAATA

                              
     148288 TTTT-TTATTTTATTATA
          1 TTTTATTA-TTTA--ATA

                           
     148305 TTTTATTATTTAA-A
          1 TTTTATTATTTAATA

               
     148319 TTT
          1 TTT

     148322 ATTTTTGACC


Statistics
Matches: 30,  Mismatches: 0, Indels: 10
        0.75            0.00        0.25

Matches are distributed among these distances:
  14    7  0.23
  15    5  0.17
  16    4  0.13
  17   11  0.37
  18    3  0.10

ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70


Consensus pattern (15 bp):   
TTTTATTATTTAATA

Found at i:148324 original size:18 final size:17

Alignment explanation


    Indices: 148285--148327  Score: 52
    Period size: 18  Copynumber: 2.5  Consensus size: 17

     148275 TACTTATTTA

                         *   
     148285 ATATTTTTTATTTTATT
          1 ATATTTTTTATTTAATT

                               
     148302 ATATTTTATTATTTAAATT
          1 ATATTTT-TTATTT-AATT

                    
     148321 -TATTTTT
          1 ATATTTTT

     148328 GACCTTTTTT


Statistics
Matches: 23,  Mismatches: 1, Indels: 4
        0.82            0.04        0.14

Matches are distributed among these distances:
  17    8  0.35
  18   12  0.52
  19    3  0.13

ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72


Consensus pattern (17 bp):   
ATATTTTTTATTTAATT

Done.