Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_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: 1608033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


File 9 of 9

Found at i:1601485 original size:30 final size:30

Alignment explanation


    Indices: 1601451--1601537  Score: 113
    Period size: 30  Copynumber: 2.9  Consensus size: 30

    1601441 TCTTTGGTGG

                          *               *
    1601451 TGAATAAGATGGTGATGAATAAGGTG-TGTC
          1 TGAATAAGATGGTGGTGAATAAGGTGATG-A

                    **                    
    1601481 TGAATAAGGCGGTGGTGAATAAGGTGATGA
          1 TGAATAAGATGGTGGTGAATAAGGTGATGA

                             *         
    1601511 TGAATAAGATGGTGGTGGATAAGGTGA
          1 TGAATAAGATGGTGGTGAATAAGGTGA

    1601538 CTTCTCTTTG


Statistics
Matches: 49,  Mismatches: 7, Indels: 2
        0.84            0.12        0.03

Matches are distributed among these distances:
  30   47  0.96
  31    2  0.04

ACGTcount: A:0.33, C:0.02, G:0.38, T:0.26


Consensus pattern (30 bp):   
TGAATAAGATGGTGGTGAATAAGGTGATGA

Found at i:1603364 original size:15 final size:15

Alignment explanation


    Indices: 1603344--1603396  Score: 79
    Period size: 15  Copynumber: 3.5  Consensus size: 15

    1603334 TTGAGACCTT

                           
    1603344 ACCCGCCCCGCATCC
          1 ACCCGCCCCGCATCC

                    *      
    1603359 ACCCGCCCTGCATCC
          1 ACCCGCCCCGCATCC

            *              
    1603374 GCCCGCCCCGCATCC
          1 ACCCGCCCCGCATCC

            *       
    1603389 GCCCGCCC
          1 ACCCGCCC

    1603397 ACTAAATATC


Statistics
Matches: 35,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  15   35  1.00

ACGTcount: A:0.09, C:0.66, G:0.17, T:0.08


Consensus pattern (15 bp):   
ACCCGCCCCGCATCC

Done.