Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005037.1 Kokia drynarioides strain JFW-HI SEQ_118804, 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, 694

Length: 1158
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34


Found at i:316 original size:106 final size:102

Alignment explanation


    Indices: 204--428  Score: 248
    Period size: 99  Copynumber: 2.2  Consensus size: 102

        194 ATTGGTGGCA

                                                              *              
        204 CCATTTAGAATGACTCCATAAAAAATAAATAAATTTAAAA-TTTAAAAAATAAATAATAAATAAT
          1 CCATTTAGAATGACTCCAT----AATAAA-AAATTTAAAATTTTAAAAAACAAATAATAAATAA-

                      *               * *         *      
        268 AAA-CAAAAAGAAGAAAAAAGTACA-CATTAA-GAATTGGTGACG
         60 AAAGC-AAAACAA-AAAAAAGTACATAAATAAGGAATTAGTGACG

             *                 *                                             
        310 CTATTTAGAATGACT---TCATAAAAAATTTAAAATTTTAAAAAACAAATAATAAATAAAAAGCA
          1 CCATTTAGAATGACTCCATAATAAAAAATTTAAAATTTTAAAAAACAAATAATAAATAAAAAGCA

                                                   
        372 AAACAAAAAAAAGTACATAAATAATGGGAATTAGTGACG
         66 AAACAAAAAAAAGTACATAAATAA--GGAATTAGTGACG

                              
        411 CCATTTAGAATGACTCCA
          1 CCATTTAGAATGACTCCA

        429 CCAGAAAAAA


Statistics
Matches: 102,  Mismatches: 8, Indels: 20
        0.78            0.06        0.15

Matches are distributed among these distances:
  97   11  0.11
  98   23  0.23
  99   28  0.27
 101   25  0.25
 103    1  0.01
 106   14  0.14

ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24


Consensus pattern (102 bp):   
CCATTTAGAATGACTCCATAATAAAAAATTTAAAATTTTAAAAAACAAATAATAAATAAAAAGCA
AAACAAAAAAAAGTACATAAATAAGGAATTAGTGACG

Found at i:704 original size:14 final size:15

Alignment explanation


    Indices: 685--724  Score: 55
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        675 GAGAAATTGA

                          *
        685 AATAATATAAA-TAT
          1 AATAATATAAATTAG

                           
        699 AATAATATAAATTAG
          1 AATAATATAAATTAG

                  *    
        714 AATAATGTAAA
          1 AATAATATAAA

        725 AATTAAAAAA


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  14   11  0.48
  15   12  0.52

ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33


Consensus pattern (15 bp):   
AATAATATAAATTAG
Done.