Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007000.1 Kokia drynarioides strain JFW-HI SEQ_121606, 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: 3281
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32


Found at i:1556 original size:56 final size:56

Alignment explanation


    Indices: 1470--1582  Score: 208
    Period size: 56  Copynumber: 2.0  Consensus size: 56

       1460 TCGATGCAAG

                                                               *    
       1470 TATAGTAGATAGAGATGAATCTATCGGATATCGATCCCACGAGGATGGTGTTTTGT
          1 TATAGTAGATAGAGATGAATCTATCGGATATCGATCCCACGAGGATGGTGTGTTGT

                       *                                            
       1526 TATAGTAGATATAGATGAATCTATCGGATATCGATCCCACGAGGATGGTGTGTTGT
          1 TATAGTAGATAGAGATGAATCTATCGGATATCGATCCCACGAGGATGGTGTGTTGT

             
       1582 T
          1 T

       1583 GCTTAAATTT


Statistics
Matches: 55,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  56   55  1.00

ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33


Consensus pattern (56 bp):   
TATAGTAGATAGAGATGAATCTATCGGATATCGATCCCACGAGGATGGTGTGTTGT

Found at i:2988 original size:3 final size:3

Alignment explanation


    Indices: 2980--3032  Score: 97
    Period size: 3  Copynumber: 17.7  Consensus size: 3

       2970 TACATATATA

                                                                         * 
       2980 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT

                  
       3028 TAT TA
          1 TAT TA

       3033 ACTTTTCTTT


Statistics
Matches: 48,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   3   48  1.00

ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66


Consensus pattern (3 bp):   
TAT

Done.