Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01007703.1 Hibiscus syriacus cultivar Beakdansim tig00109916_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: 1017536
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


File 6 of 6

Found at i:1015395 original size:29 final size:30

Alignment explanation


    Indices: 1015349--1015406  Score: 82
    Period size: 29  Copynumber: 2.0  Consensus size: 30

    1015339 ATTTCAAAAT

                                          
    1015349 TATAATTATGAAAAAAAATATTAATTTATA
          1 TATAATTATGAAAAAAAATATTAATTTATA

                *        *        *      
    1015379 TATATTTAT-AAAGAAAATATTTATTTAT
          1 TATAATTATGAAAAAAAATATTAATTTAT

    1015407 TTAGAAATAT


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  29   17  0.68
  30    8  0.32

ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45


Consensus pattern (30 bp):   
TATAATTATGAAAAAAAATATTAATTTATA

Found at i:1015694 original size:28 final size:28

Alignment explanation


    Indices: 1015662--1015737  Score: 66
    Period size: 29  Copynumber: 2.7  Consensus size: 28

    1015652 TATATAGACT

                                 * **   
    1015662 ATATAATAATAATAAAAATAATATTTAA
          1 ATATAATAATAATAAAAATAAAACATAA

                      *        *          
    1015690 ATAT-ATAAACAAGTAAAATTAAAACATAA
          1 ATATAAT-AATAA-TAAAAATAAAACATAA

                  *             
    1015719 ATA-AACAATAATAAAAATA
          1 ATATAATAATAATAAAAATA

    1015738 CAATTAGAAC


Statistics
Matches: 37,  Mismatches: 8, Indels: 7
        0.71            0.15        0.13

Matches are distributed among these distances:
  27    9  0.24
  28   12  0.32
  29   16  0.43

ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28


Consensus pattern (28 bp):   
ATATAATAATAATAAAAATAAAACATAA

Found at i:1017129 original size:22 final size:22

Alignment explanation


    Indices: 1017080--1017132  Score: 72
    Period size: 22  Copynumber: 2.4  Consensus size: 22

    1017070 TAATATTTTT

                    *             
    1017080 TAATAATAAAATATAATAATTA
          1 TAATAATATAATATAATAATTA

             *                    
    1017102 TTATAATATAATATAATAA-TA
          1 TAATAATATAATATAATAATTA

                      
    1017123 TAAATAATAT
          1 T-AATAATAT

    1017133 TTAAATGAAA


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  21    3  0.11
  22   24  0.89

ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40


Consensus pattern (22 bp):   
TAATAATATAATATAATAATTA

Done.