Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005375.1 Kokia drynarioides strain JFW-HI SEQ_119362, 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, 736

Length: 1227
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39


Found at i:582 original size:63 final size:65

Alignment explanation


    Indices: 509--690  Score: 184
    Period size: 67  Copynumber: 2.8  Consensus size: 65

        499 ACTCCATTTC

                                                                             
        509 ATTTTA-TTTATTTATTTATTATTT-TTATT-T-T-TATAAATATGAATAAATATAAAATAATAT
          1 ATTTTATTTTATTTATTTATTATTTATTATTGTATATATAAATA--AATAAATATAAAATAATAT

              
        569 TA
         64 TA

                                                                  *          
        571 ATTTTATTTTA-TTATTTATTTATTTATTATTGTATGAATATAAATAAATAAATGTAAAATAATA
          1 ATTTTATTTTATTTATTTA-TTATTTATTATTGTAT--ATATAAATAAATAAATATAAAATAATA

               
        635 TTA
         63 TTA

                                           *   *    *               
        638 ATTGTGT-TTTAGTATTTATTTATTATTTATGA--ATATAAATAAATAAATAAATA
          1 ATT-T-TATTT--TATTTATTTATTATTTATTATTGTATATATAAATAAATAAATA

        691 ACAAACCAAA


Statistics
Matches: 102,  Mismatches: 5, Indels: 22
        0.79            0.04        0.17

Matches are distributed among these distances:
  62   13  0.13
  63   10  0.10
  64    5  0.05
  65    1  0.01
  66   16  0.16
  67   23  0.23
  68    7  0.07
  69    9  0.09
  70   11  0.11
  71    7  0.07

ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53


Consensus pattern (65 bp):   
ATTTTATTTTATTTATTTATTATTTATTATTGTATATATAAATAAATAAATATAAAATAATATTA

Found at i:629 original size:67 final size:63

Alignment explanation


    Indices: 510--686  Score: 212
    Period size: 62  Copynumber: 2.7  Consensus size: 63

        500 CTCCATTTCA

                                       ***                                   
        510 TTTTATTTATTTATTTATTATTTTTATTTTTATAAATATGAATAAATATAAAATAATATTAATTT
          1 TTTTATTTATTTATTTATTA--TTTATGAATATAAATA--AATAAATATAAAATAATATTAA--T

               *
        575 TATT
         60 TATG

                                                         *                *  
        579 TTATTATTTATTTATTTATTATTGTATGAATATAAATAAATAAATGTAAAATAATATTAATTGTG
          1 TT-TTATTTATTTATTTATTATT-TATGAATATAAATAAATAAATATAAAATAATATTAATTATG

                  *                                     
        644 TTTTA-GTATTTATTTATTATTTATGAATATAAATAAATAAATA
          1 TTTTATTTATTTATTTATTATTTATGAATATAAATAAATAAATA

        687 AATAACAAAC


Statistics
Matches: 98,  Mismatches: 8, Indels: 11
        0.84            0.07        0.09

Matches are distributed among these distances:
  62   21  0.21
  63   15  0.15
  64    3  0.03
  65    5  0.05
  67   21  0.21
  68    2  0.02
  69   13  0.13
  70   18  0.18

ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54


Consensus pattern (63 bp):   
TTTTATTTATTTATTTATTATTTATGAATATAAATAAATAAATATAAAATAATATTAATTATG
Done.