Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007917.1 Kokia drynarioides strain JFW-HI SEQ_122561, 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: 9652
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34


Found at i:2323 original size:17 final size:17

Alignment explanation


    Indices: 2301--2339  Score: 51
    Period size: 17  Copynumber: 2.3  Consensus size: 17

       2291 GGATAATTTT

                   *         
       2301 AAATATTGTGTTTAAAA
          1 AAATATTATGTTTAAAA

                     *       
       2318 AAATATTATTTTTAAAA
          1 AAATATTATGTTTAAAA

            *    
       2335 GAATA
          1 AAATA

       2340 GTAATATTAT


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  17   19  1.00

ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41


Consensus pattern (17 bp):   
AAATATTATGTTTAAAA

Found at i:2395 original size:24 final size:23

Alignment explanation


    Indices: 2351--2404  Score: 56
    Period size: 24  Copynumber: 2.3  Consensus size: 23

       2341 TAATATTATG

                  *                 
       2351 AAATATTTTTAAAACAATTTAATA
          1 AAATATATTTAAAACAATTTAA-A

                             *      
       2375 AAATATATTTACAAAC-TTTTAAA
          1 AAATATATTTA-AAACAATTTAAA

             *     
       2398 ATATATA
          1 AAATATA

       2405 GATTATATAT


Statistics
Matches: 26,  Mismatches: 3, Indels: 3
        0.81            0.09        0.09

Matches are distributed among these distances:
  23    7  0.27
  24   15  0.58
  25    4  0.15

ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41


Consensus pattern (23 bp):   
AAATATATTTAAAACAATTTAAA

Found at i:4175 original size:20 final size:20

Alignment explanation


    Indices: 4152--4208  Score: 71
    Period size: 20  Copynumber: 2.9  Consensus size: 20

       4142 GAAAAAAATT

                                 
       4152 AAATTCAA-ATTAAAATTTTG
          1 AAATTCAAGA-TAAAATTTTG

                 *              
       4172 AAATTTAAGATAAAATTTTG
          1 AAATTCAAGATAAAATTTTG

                 * *         
       4192 AAATTTATGATAAAATT
          1 AAATTCAAGATAAAATT

       4209 AATGATATAA


Statistics
Matches: 34,  Mismatches: 2, Indels: 2
        0.89            0.05        0.05

Matches are distributed among these distances:
  20   33  0.97
  21    1  0.03

ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40


Consensus pattern (20 bp):   
AAATTCAAGATAAAATTTTG
Done.