Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01003484.1 Hibiscus syriacus cultivar Beakdansim tig00007364_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: 166059
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


File 2 of 2

Found at i:162064 original size:19 final size:19

Alignment explanation


    Indices: 162034--162081  Score: 78
    Period size: 20  Copynumber: 2.5  Consensus size: 19

     162024 TATTCAAACT

                               
     162034 TAATCCTAAAAATAAAAGA
          1 TAATCCTAAAAATAAAAGA

                            *   
     162053 TAATTCCTAAAAATAAGAGA
          1 TAA-TCCTAAAAATAAAAGA

                     
     162073 TAATCCTAA
          1 TAATCCTAA

     162082 TTTCAAATTC


Statistics
Matches: 27,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  19    9  0.33
  20   18  0.67

ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25


Consensus pattern (19 bp):   
TAATCCTAAAAATAAAAGA

Found at i:162819 original size:59 final size:59

Alignment explanation


    Indices: 162727--162843  Score: 198
    Period size: 59  Copynumber: 2.0  Consensus size: 59

     162717 GATGGATAAG

                     *                                *                
     162727 TGTCCTATCGAACCCTCCTACTCGAAATGAAAAGGAAAACTCGATAATATGGCTCTAAA
          1 TGTCCTATCAAACCCTCCTACTCGAAATGAAAAGGAAAACTCAATAATATGGCTCTAAA

                                * *                                   
     162786 TGTCCTATCAAACCCTCCTAGTTGAAATGAAAAGGAAAACTCAATAATATGGCTCTAA
          1 TGTCCTATCAAACCCTCCTACTCGAAATGAAAAGGAAAACTCAATAATATGGCTCTAA

     162844 CCAACCCTCC


Statistics
Matches: 54,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  59   54  1.00

ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25


Consensus pattern (59 bp):   
TGTCCTATCAAACCCTCCTACTCGAAATGAAAAGGAAAACTCAATAATATGGCTCTAAA

Found at i:164052 original size:19 final size:19

Alignment explanation


    Indices: 164025--164090  Score: 78
    Period size: 19  Copynumber: 3.5  Consensus size: 19

     164015 AGCCTCGGGG

                *          *   
     164025 TACTTTTCAAACAGTGATT
          1 TACTGTTCAAACAGTAATT

                       *       
     164044 TACTGTTCAAATAGTAATT
          1 TACTGTTCAAACAGTAATT

                       *     * 
     164063 TACTGTTCAAATAGTAAAT
          1 TACTGTTCAAACAGTAATT

                *    
     164082 TACTATTCA
          1 TACTGTTCA

     164091 TAAAAACATT


Statistics
Matches: 42,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  19   42  1.00

ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41


Consensus pattern (19 bp):   
TACTGTTCAAACAGTAATT

Done.