Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01000659.1 Hibiscus syriacus cultivar Beakdansim tig00001282_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: 163697
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32


File 2 of 2

Found at i:147016 original size:17 final size:19

Alignment explanation


    Indices: 146980--147018  Score: 55
    Period size: 17  Copynumber: 2.2  Consensus size: 19

     146970 TGCATTAATC

                           *   
     146980 AAAATTACTAAAATTGGTA
          1 AAAATTACTAAAATTAGTA

                               
     146999 AAAATTA-T-AAATTAGTA
          1 AAAATTACTAAAATTAGTA

               
     147016 AAA
          1 AAA

     147019 GTAATTATTT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  17   11  0.58
  18    1  0.05
  19    7  0.37

ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31


Consensus pattern (19 bp):   
AAAATTACTAAAATTAGTA

Found at i:150023 original size:35 final size:34

Alignment explanation


    Indices: 149977--150072  Score: 102
    Period size: 35  Copynumber: 2.7  Consensus size: 34

     149967 CACACAATCA

                         *           *         
     149977 TCAATTATATTCTTAACCCAAAATTTCAAAATACT
          1 TCAATTATATTCTAAACCC-AAATTCCAAAATACT

                              *           *    
     150012 TCAATTATATTCTAAAGCTCAAATTCCAAAGTACT
          1 TCAATTATATTCTAAA-CCCAAATTCCAAAATACT

                   *  *     *         
     150047 TCAATTACATGCTCAACCCCAAATTC
          1 TCAATTATATTCT-AAACCCAAATTC

     150073 ATAATCTATT


Statistics
Matches: 51,  Mismatches: 8, Indels: 4
        0.81            0.13        0.06

Matches are distributed among these distances:
  35   47  0.92
  36    4  0.08

ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33


Consensus pattern (34 bp):   
TCAATTATATTCTAAACCCAAATTCCAAAATACT

Found at i:163435 original size:49 final size:46

Alignment explanation


    Indices: 163346--163439  Score: 116
    Period size: 46  Copynumber: 2.0  Consensus size: 46

     163336 GTTTTGAAAA

                                 *  *                     
     163346 AATGAAAATCTAAGTACCAAACACGTTTACCTAAACCATACTTAAT
          1 AATGAAAATCTAAGTACCAAAAACATTTACCTAAACCATACTTAAT

                   *    *                         *         
     163392 AATGAAAGTCTAGGTACCAAAAAACATTTACTACTAAATCATACTTAA
          1 AATGAAAATCTAAGTACC-AAAAACATTTAC--CTAAACCATACTTAA

     163440 GTTTTGGATT


Statistics
Matches: 40,  Mismatches: 5, Indels: 3
        0.83            0.10        0.06

Matches are distributed among these distances:
  46   16  0.40
  47   10  0.25
  49   14  0.35

ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27


Consensus pattern (46 bp):   
AATGAAAATCTAAGTACCAAAAACATTTACCTAAACCATACTTAAT

Done.