Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01006631.1 Hibiscus syriacus cultivar Beakdansim tig00016298_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: 158435
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33


File 2 of 2

Found at i:155571 original size:63 final size:62

Alignment explanation


    Indices: 155467--155590  Score: 187
    Period size: 63  Copynumber: 2.0  Consensus size: 62

     155457 AACCTCGGCA

                                   *                       *              
     155467 ACTGTCCATAGGTCCCAAAGAACCTAGGTAAACTGTCCATATATTCCTTAGAACATAGGTAT
          1 ACTGTCCATAGGTCCCAAAGAACATAGGTAAACTGTCCATATATTCCGTAGAACATAGGTAT

                      *     *                                              
     155529 ACTGTCCATATGTCTCGAAAG-ACATAGGTAAAACTGTCCATATATTCCGTAGAACATAGGTA
          1 ACTGTCCATAGGTC-CCAAAGAACATAGGT-AAACTGTCCATATATTCCGTAGAACATAGGTA

     155591 AACCCTCGAC


Statistics
Matches: 56,  Mismatches: 4, Indels: 3
        0.89            0.06        0.05

Matches are distributed among these distances:
  62   20  0.36
  63   36  0.64

ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27


Consensus pattern (62 bp):   
ACTGTCCATAGGTCCCAAAGAACATAGGTAAACTGTCCATATATTCCGTAGAACATAGGTAT

Found at i:155586 original size:32 final size:31

Alignment explanation


    Indices: 155485--155593  Score: 132
    Period size: 31  Copynumber: 3.5  Consensus size: 31

     155475 TAGGTCCCAA

                 *                       * 
     155485 AGAACCTAGGTAAACTGTCCATATATTCCTT
          1 AGAACATAGGTAAACTGTCCATATATTCCGT

                        *            *      
     155516 AGAACATAGGTATACTGTCCATAT-GTCTCG-
          1 AGAACATAGGTAAACTGTCCATATATTC-CGT

             *                               
     155546 AAAGACATAGGTAAAACTGTCCATATATTCCGT
          1 AGA-ACATAGGT-AAACTGTCCATATATTCCGT

                           
     155579 AGAACATAGGTAAAC
          1 AGAACATAGGTAAAC

     155594 CCTCGACTCT


Statistics
Matches: 65,  Mismatches: 8, Indels: 10
        0.78            0.10        0.12

Matches are distributed among these distances:
  30    4  0.06
  31   35  0.54
  32   22  0.34
  33    4  0.06

ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28


Consensus pattern (31 bp):   
AGAACATAGGTAAACTGTCCATATATTCCGT

Done.