Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01008969.1 Hibiscus syriacus cultivar Beakdansim tig00112311_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: 8498
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34


Found at i:3932 original size:18 final size:18

Alignment explanation


    Indices: 3898--3950  Score: 56
    Period size: 19  Copynumber: 2.9  Consensus size: 18

       3888 CTTTTTGAAT

                         *    
       3898 TCTTTTTCTT-TTCTTT-
          1 TCTTTTTCTTCTTTTTTG

                                
       3914 TCTTCTTTTCTTCTTTTTTG
          1 TC-T-TTTTCTTCTTTTTTG

                             
       3934 TCTTTTTCTTTCTTTTT
          1 TCTTTTTC-TTCTTTTT

       3951 GCACTCCAAT


Statistics
Matches: 31,  Mismatches: 1, Indels: 7
        0.79            0.03        0.18

Matches are distributed among these distances:
  16    2  0.06
  17    1  0.03
  18   12  0.39
  19   14  0.45
  20    2  0.06

ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79


Consensus pattern (18 bp):   
TCTTTTTCTTCTTTTTTG

Found at i:8444 original size:5 final size:5

Alignment explanation


    Indices: 8436--8487  Score: 54
    Period size: 5  Copynumber: 10.4  Consensus size: 5

       8426 TCTTTTTGAA

                                                * *                      
       8436 TTCTT TTCTT TTCTT TTCTTT CTTCTT TTCTG AT-TT TTCTT TTC-T TTCTT
          1 TTCTT TTCTT TTCTT TTC-TT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT

              
       8486 TT
          1 TT

       8488 TGCACTCCAA


Statistics
Matches: 39,  Mismatches: 4, Indels: 8
        0.76            0.08        0.16

Matches are distributed among these distances:
   4    6  0.15
   5   26  0.67
   6    4  0.10
   7    3  0.08

ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77


Consensus pattern (5 bp):   
TTCTT

Found at i:8464 original size:22 final size:23

Alignment explanation


    Indices: 8436--8485  Score: 66
    Period size: 26  Copynumber: 2.1  Consensus size: 23

       8426 TCTTTTTGAA

                                   
       8436 TTCTTTTC-TTTTCTTTTCTTTC
          1 TTCTTTTCTTTTTCTTTTCTTTC

                                      
       8458 TTCTTTTCTGATTTTTCTTTTCTTTC
          1 TTCTTTTC---TTTTTCTTTTCTTTC

              
       8484 TT
          1 TT

       8486 TTTGCACTCC


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  22    8  0.33
  26   16  0.67

ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76


Consensus pattern (23 bp):   
TTCTTTTCTTTTTCTTTTCTTTC
Done.