Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01008118.1 Hibiscus syriacus cultivar Beakdansim tig00110657_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: 238723
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


File 2 of 2

Found at i:236348 original size:14 final size:16

Alignment explanation


    Indices: 236329--236360  Score: 50
    Period size: 14  Copynumber: 2.1  Consensus size: 16

     236319 CATTTTTTAA

                            
     236329 ATTTTTT-AAAT-TAT
          1 ATTTTTTGAAATATAT

                            
     236343 ATTTTTTGAAATATAT
          1 ATTTTTTGAAATATAT

              
     236359 AT
          1 AT

     236361 ATAATTCTAA


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    7  0.44
  15    4  0.25
  16    5  0.31

ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59


Consensus pattern (16 bp):   
ATTTTTTGAAATATAT

Found at i:237496 original size:20 final size:19

Alignment explanation


    Indices: 237471--237514  Score: 70
    Period size: 19  Copynumber: 2.3  Consensus size: 19

     237461 AAAAAATTAA

                             *  
     237471 AAAAATGTAAAAATAAATTT
          1 AAAAATGT-AAAATAAAGTT

                               
     237491 AAAAATGTAAAATAAAGTT
          1 AAAAATGTAAAATAAAGTT

                 
     237510 AAAAA
          1 AAAAA

     237515 ATTACCTTAC


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  19   15  0.65
  20    8  0.35

ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25


Consensus pattern (19 bp):   
AAAAATGTAAAATAAAGTT

Found at i:237515 original size:20 final size:20

Alignment explanation


    Indices: 237464--237516  Score: 72
    Period size: 20  Copynumber: 2.6  Consensus size: 20

     237454 TAAAAATAAA

                                 
     237464 AAATTAAAAAAATGTAAAAAT
          1 AAATT-AAAAAATGTAAAAAT

                 *              
     237485 AAATTTAAAAATGT-AAAAT
          1 AAATTAAAAAATGTAAAAAT

                         
     237504 AAAGTTAAAAAAT
          1 AAA-TTAAAAAAT

     237517 TACCTTACAG


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  19    8  0.28
  20   16  0.55
  21    5  0.17

ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26


Consensus pattern (20 bp):   
AAATTAAAAAATGTAAAAAT

Done.