Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01006453.1 Hibiscus syriacus cultivar Beakdansim tig00015632_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: 172346
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


File 2 of 2

Found at i:151721 original size:18 final size:18

Alignment explanation


    Indices: 151694--151740  Score: 85
    Period size: 18  Copynumber: 2.6  Consensus size: 18

     151684 GCACATATAC

                              
     151694 CATCATTATCAACATCAA
          1 CATCATTATCAACATCAA

               *              
     151712 CATTATTATCAACATCAA
          1 CATCATTATCAACATCAA

                       
     151730 CATCATTATCA
          1 CATCATTATCA

     151741 TGATCTCTAT


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  18   27  1.00

ACGTcount: A:0.43, C:0.26, G:0.00, T:0.32


Consensus pattern (18 bp):   
CATCATTATCAACATCAA

Found at i:153509 original size:29 final size:30

Alignment explanation


    Indices: 153477--153544  Score: 95
    Period size: 30  Copynumber: 2.3  Consensus size: 30

     153467 CATTCAAAAC

                                            
     153477 TTTTCTAAAATTATTA-AATTGGTCCCCA-AT
          1 TTTTCTAAAATTA-TAGAA-TGGTCCCCAGAT

                 *                        
     153507 TTTTCAAAAATTATAGAATGGTCCCCAGAT
          1 TTTTCTAAAATTATAGAATGGTCCCCAGAT

                    
     153537 TTTTCTAA
          1 TTTTCTAA

     153545 GGCTTGTAGA


Statistics
Matches: 34,  Mismatches: 2, Indels: 4
        0.85            0.05        0.10

Matches are distributed among these distances:
  29   11  0.32
  30   23  0.68

ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41


Consensus pattern (30 bp):   
TTTTCTAAAATTATAGAATGGTCCCCAGAT

Found at i:168813 original size:18 final size:18

Alignment explanation


    Indices: 168770--168806  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

     168760 TTGAGATCAA

                  *           
     168770 GTACCATTGGACTCTTTG
          1 GTACCAATGGACTCTTTG

                              
     168788 GTACCAATGGACTCTTTG
          1 GTACCAATGGACTCTTTG

             
     168806 G
          1 G

     168807 GTCCAATATG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35


Consensus pattern (18 bp):   
GTACCAATGGACTCTTTG

Done.