Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01005294.1 Hibiscus syriacus cultivar Beakdansim tig00011985_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: 212260
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32


File 2 of 2

Found at i:192829 original size:68 final size:68

Alignment explanation


    Indices: 192720--192855  Score: 254
    Period size: 68  Copynumber: 2.0  Consensus size: 68

     192710 ATCAGAAACT

                                                               *             
     192720 ATAGAAACAAGCACCCCATGCAGTCTAATAATTTCTCTAATATACAGTTCCGCATATTTTTCCAT
          1 ATAGAAACAAGCACCCCATGCAGTCTAATAATTTCTCTAATATACAGTTCCACATATTTTTCCAT

               
     192785 AGA
         66 AGA

                     *                                                       
     192788 ATAGAAACATGCACCCCATGCAGTCTAATAATTTCTCTAATATACAGTTCCACATATTTTTCCAT
          1 ATAGAAACAAGCACCCCATGCAGTCTAATAATTTCTCTAATATACAGTTCCACATATTTTTCCAT

               
     192853 AGA
         66 AGA

     192856 GAAATCTGTT


Statistics
Matches: 66,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  68   66  1.00

ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32


Consensus pattern (68 bp):   
ATAGAAACAAGCACCCCATGCAGTCTAATAATTTCTCTAATATACAGTTCCACATATTTTTCCAT
AGA

Found at i:197113 original size:23 final size:23

Alignment explanation


    Indices: 197087--197178  Score: 112
    Period size: 23  Copynumber: 4.0  Consensus size: 23

     197077 CACCACAGCT

                *    *     *       
     197087 CGTATAATTGCACCGAAGTGCCA
          1 CGTAGAATTACACCGGAGTGCCA

                                   
     197110 CGTAGAATTACACCGGAGTGCCA
          1 CGTAGAATTACACCGGAGTGCCA

                                * *
     197133 CGTAGAATTACACCGGAGTGTCG
          1 CGTAGAATTACACCGGAGTGCCA

            *        *     *       
     197156 TGTAGAATTGCACCGTAGTGCCA
          1 CGTAGAATTACACCGGAGTGCCA

     197179 TAAAATAATG


Statistics
Matches: 59,  Mismatches: 10, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  23   59  1.00

ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22


Consensus pattern (23 bp):   
CGTAGAATTACACCGGAGTGCCA

Found at i:197852 original size:21 final size:21

Alignment explanation


    Indices: 197828--197870  Score: 50
    Period size: 21  Copynumber: 2.0  Consensus size: 21

     197818 TCATATTCAT

                *      *         
     197828 TTGAGGGGGAATCGATTCCCC
          1 TTGAAGGGGAACCGATTCCCC

                 *   *           
     197849 TTGAATGGGTACCGATTCCCC
          1 TTGAAGGGGAACCGATTCCCC

             
     197870 T
          1 T

     197871 AGCCCATAAA


Statistics
Matches: 18,  Mismatches: 4, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28


Consensus pattern (21 bp):   
TTGAAGGGGAACCGATTCCCC

Done.