Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01006072.1 Hibiscus syriacus cultivar Beakdansim tig00014376_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: 145821
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33


File 2 of 2

Found at i:140139 original size:54 final size:55

Alignment explanation


    Indices: 140068--140211  Score: 209
    Period size: 55  Copynumber: 2.6  Consensus size: 55

     140058 ATTGTATGAG

                               *                                   
     140068 TGTGTATCGGTATACTGAGAAGTGTATCGATACCCTC-AAACATCGAATGTCATT
          1 TGTGTATCGGTATACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATT

                        *                 * *              *   **  
     140122 TGTGTATCGGTACACTGAGGAGTGTATCGACAACCTCAAAACATCGAGTGTTTTT
          1 TGTGTATCGGTATACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATT

             *                                 
     140177 TTTGTATCGGTATACTGAGGAGTGTATCGATACCC
          1 TGTGTATCGGTATACTGAGGAGTGTATCGATACCC

     140212 CTAAGTATGA


Statistics
Matches: 78,  Mismatches: 11, Indels: 1
        0.87            0.12        0.01

Matches are distributed among these distances:
  54   33  0.42
  55   45  0.58

ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32


Consensus pattern (55 bp):   
TGTGTATCGGTATACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATT

Found at i:140788 original size:21 final size:21

Alignment explanation


    Indices: 140764--140813  Score: 66
    Period size: 21  Copynumber: 2.3  Consensus size: 21

     140754 CTGGGACAAA

                                  
     140764 TATGTGGCACTTC-TGCAACCC
          1 TATGTGGCACTTCATGCAA-CC

                  *               
     140785 TATGTGACACTTCGATGCAACC
          1 TATGTGGCACTTC-ATGCAACC

                   
     140807 TATGTGG
          1 TATGTGG

     140814 TCCTTTGGGA


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  21   12  0.48
  22    8  0.32
  23    5  0.20

ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30


Consensus pattern (21 bp):   
TATGTGGCACTTCATGCAACC


Done.