Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01007644.1 Hibiscus syriacus cultivar Beakdansim tig00024409_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: 73856
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27


Found at i:11811 original size:15 final size:15

Alignment explanation


    Indices: 11788--11818  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

      11778 CAATGCCTTA

                           
      11788 ACTCATAGCTTCAGG
          1 ACTCATAGCTTCAGG

                *          
      11803 ACTCTTAGCTTCAGG
          1 ACTCATAGCTTCAGG

             
      11818 A
          1 A

      11819 AGTGAGAAAG


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29


Consensus pattern (15 bp):   
ACTCATAGCTTCAGG

Found at i:18794 original size:30 final size:30

Alignment explanation


    Indices: 18735--18800  Score: 89
    Period size: 30  Copynumber: 2.2  Consensus size: 30

      18725 GGAGGCATAC

                       *            *      
      18735 TAGCAGGGGATTCGTACTAAGAGCGGTTATG
          1 TAGCAGGGGATGCGTAC-AAGAGCCGTTATG

                                           
      18766 TAGCAGGGGATGCGTTA-AAGAGCCGTTATG
          1 TAGCAGGGGATGCG-TACAAGAGCCGTTATG

                 
      18796 TAGCA
          1 TAGCA

      18801 TCTGAGAACA


Statistics
Matches: 32,  Mismatches: 2, Indels: 3
        0.86            0.05        0.08

Matches are distributed among these distances:
  30   17  0.53
  31   13  0.41
  32    2  0.06

ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24


Consensus pattern (30 bp):   
TAGCAGGGGATGCGTACAAGAGCCGTTATG

Found at i:40671 original size:15 final size:15

Alignment explanation


    Indices: 40648--40678  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

      40638 CAATGCCTTA

                           
      40648 ACTCATAGCTTCAGG
          1 ACTCATAGCTTCAGG

                *          
      40663 ACTCTTAGCTTCAGG
          1 ACTCATAGCTTCAGG

             
      40678 A
          1 A

      40679 AGTGAGAAAG


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29


Consensus pattern (15 bp):   
ACTCATAGCTTCAGG

Found at i:47653 original size:30 final size:30

Alignment explanation


    Indices: 47594--47659  Score: 89
    Period size: 30  Copynumber: 2.2  Consensus size: 30

      47584 GGAGGCATAC

                       *            *      
      47594 TAGCAGGGGATTCGTACTAAGAGCGGTTATG
          1 TAGCAGGGGATGCGTAC-AAGAGCCGTTATG

                                           
      47625 TAGCAGGGGATGCGTTA-AAGAGCCGTTATG
          1 TAGCAGGGGATGCG-TACAAGAGCCGTTATG

                 
      47655 TAGCA
          1 TAGCA

      47660 TCTGAGAACA


Statistics
Matches: 32,  Mismatches: 2, Indels: 3
        0.86            0.05        0.08

Matches are distributed among these distances:
  30   17  0.53
  31   13  0.41
  32    2  0.06

ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24


Consensus pattern (30 bp):   
TAGCAGGGGATGCGTACAAGAGCCGTTATG

Found at i:69528 original size:15 final size:15

Alignment explanation


    Indices: 69505--69535  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

      69495 CAATGCCTTA

                           
      69505 ACTCATAGCTTCAGG
          1 ACTCATAGCTTCAGG

                *          
      69520 ACTCTTAGCTTCAGG
          1 ACTCATAGCTTCAGG

             
      69535 A
          1 A

      69536 AGTGAGAAAG


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29


Consensus pattern (15 bp):   
ACTCATAGCTTCAGG
Done.