Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01000058.1 Hibiscus syriacus cultivar Beakdansim tig00000088_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: 181416
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


File 2 of 2

Found at i:180491 original size:26 final size:26

Alignment explanation


    Indices: 180442--180600  Score: 210
    Period size: 26  Copynumber: 6.0  Consensus size: 26

     180432 GTTTAAAATG

                   *                   
     180442 AAATGCAAATGCAAAATGCAAAGATGT
          1 AAATGCAGATGC-AAATGCAAAGATGT

                             *        
     180469 AAATGCAGATGCAAATGTAAAGATGT
          1 AAATGCAGATGCAAATGCAAAGATGT

                       *         *    
     180495 AAATGCAGATGTAAATGCAAATATGT
          1 AAATGCAGATGCAAATGCAAAGATGT

                *                      
     180521 AAATACAGATGCAAAATGCAAAGATGT
          1 AAATGCAGATGC-AAATGCAAAGATGT

                   *        *         
     180548 AAATGCATATGCAAATACAAAGATGT
          1 AAATGCAGATGCAAATGCAAAGATGT

                         *             
     180574 AAATGCAGATGAAAAAATGCAAAGATG
          1 AAATGCAGATG--CAAATGCAAAGATG

     180601 CAAAAATGTT


Statistics
Matches: 115,  Mismatches: 14, Indels: 5
        0.86            0.10        0.04

Matches are distributed among these distances:
  26   69  0.60
  27   34  0.30
  28   12  0.10

ACGTcount: A:0.50, C:0.09, G:0.19, T:0.21


Consensus pattern (26 bp):   
AAATGCAGATGCAAATGCAAAGATGT

Found at i:180538 original size:53 final size:53

Alignment explanation


    Indices: 180442--180600  Score: 221
    Period size: 53  Copynumber: 3.0  Consensus size: 53

     180432 GTTTAAAATG

                   *                                     *        
     180442 AAATGCAAATGCAAAATGCAAAGATGTAAATGCAGATGC-AAATGTAAAGATGT
          1 AAATGCAGATGC-AAATGCAAAGATGTAAATGCAGATGCAAAATGCAAAGATGT

                       *         *        *                      
     180495 AAATGCAGATGTAAATGCAAATATGTAAATACAGATGCAAAATGCAAAGATGT
          1 AAATGCAGATGCAAATGCAAAGATGTAAATGCAGATGCAAAATGCAAAGATGT

                   *        *                     *              
     180548 AAATGCATATGCAAATACAAAGATGTAAATGCAGATGAAAAAATGCAAAGATG
          1 AAATGCAGATGCAAATGCAAAGATGTAAATGCAGATG-CAAAATGCAAAGATG

     180601 CAAAAATGTT


Statistics
Matches: 93,  Mismatches: 11, Indels: 3
        0.87            0.10        0.03

Matches are distributed among these distances:
  52   24  0.26
  53   55  0.59
  54   14  0.15

ACGTcount: A:0.50, C:0.09, G:0.19, T:0.21


Consensus pattern (53 bp):   
AAATGCAGATGCAAATGCAAAGATGTAAATGCAGATGCAAAATGCAAAGATGT

Done.