Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009266.1 Kokia drynarioides strain JFW-HI SEQ_123971, 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: 6100
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33


Found at i:933 original size:2 final size:2

Alignment explanation


    Indices: 926--954  Score: 51
    Period size: 2  Copynumber: 15.0  Consensus size: 2

        916 AGCTTTTCCC

                                                        
        926 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

        955 GCCCTCCTAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   1    1  0.04
   2   25  0.96

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:2906 original size:29 final size:28

Alignment explanation


    Indices: 2856--2926  Score: 81
    Period size: 28  Copynumber: 2.4  Consensus size: 28

       2846 CTAAAAAGGT

                      *                    
       2856 ATTTTTTAATATTTTAATATTTAATATTATA
          1 ATTTTTT-ATTTTTTAATATTTAA-ATT-TA

            *                           
       2887 GTTTTTTATTTTTTAA-ATTTAAATTTA
          1 ATTTTTTATTTTTTAATATTTAAATTTA

                         
       2914 ATGTTTTTATTTT
          1 AT-TTTTTATTTT

       2927 AATTGCCACA


Statistics
Matches: 36,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  27    3  0.08
  28   13  0.36
  29    6  0.17
  30    8  0.22
  31    6  0.17

ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66


Consensus pattern (28 bp):   
ATTTTTTATTTTTTAATATTTAAATTTA

Found at i:5565 original size:49 final size:49

Alignment explanation


    Indices: 5507--5606  Score: 200
    Period size: 49  Copynumber: 2.0  Consensus size: 49

       5497 TAGTTTAATC

                                                             
       5507 AAATGGATACATAATGATTTAAAAGAAATAATTCAAGTTTAAGGCTATA
          1 AAATGGATACATAATGATTTAAAAGAAATAATTCAAGTTTAAGGCTATA

                                                             
       5556 AAATGGATACATAATGATTTAAAAGAAATAATTCAAGTTTAAGGCTATA
          1 AAATGGATACATAATGATTTAAAAGAAATAATTCAAGTTTAAGGCTATA

              
       5605 AA
          1 AA

       5607 CTGTGAAGAA


Statistics
Matches: 51,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  49   51  1.00

ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30


Consensus pattern (49 bp):   
AAATGGATACATAATGATTTAAAAGAAATAATTCAAGTTTAAGGCTATA
Done.