Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012418.1 Kokia drynarioides strain JFW-HI SEQ_127422, 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: 7651
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37


Found at i:2158 original size:23 final size:23

Alignment explanation


    Indices: 2132--2180  Score: 62
    Period size: 23  Copynumber: 2.1  Consensus size: 23

       2122 TTTTCTTTCC

                          *    *   
       2132 TTTTGTTAATTTATTATTTTTTA
          1 TTTTGTTAATTTATCATTTATTA

                *  *               
       2155 TTTTTTTTATTTATCATTTATTA
          1 TTTTGTTAATTTATCATTTATTA

               
       2178 TTT
          1 TTT

       2181 ATTTCCTTTT


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  23   22  1.00

ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76


Consensus pattern (23 bp):   
TTTTGTTAATTTATCATTTATTA

Found at i:2201 original size:33 final size:31

Alignment explanation


    Indices: 2140--2224  Score: 84
    Period size: 33  Copynumber: 2.7  Consensus size: 31

       2130 CCTTTTGTTA

                                  *        
       2140 ATTTATTATTT-TTTATTTTTTTTATTTATC
          1 ATTTATTATTTATTTATTTTTTCTATTTATC

                            *         *     *
       2170 ATTTATTATTTATTTCCTTTTTATCTGTTTATT
          1 ATTTATTATTTATTT-ATTTTT-TCTATTTATC

                                   
       2203 ATTTAATT-TTTATTTTATTTTT
          1 ATTT-ATTATTTA-TTTATTTTT

       2225 CTCTCTATAT


Statistics
Matches: 45,  Mismatches: 5, Indels: 7
        0.79            0.09        0.12

Matches are distributed among these distances:
  30   11  0.24
  31    3  0.07
  32    5  0.11
  33   20  0.44
  34    6  0.13

ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74


Consensus pattern (31 bp):   
ATTTATTATTTATTTATTTTTTCTATTTATC

Found at i:2366 original size:10 final size:10

Alignment explanation


    Indices: 2347--2390  Score: 54
    Period size: 10  Copynumber: 4.4  Consensus size: 10

       2337 TATTTCTATT

                      
       2347 ATTTATTTTC
          1 ATTTATTTTC

                 *    
       2357 ATTTAATTTC
          1 ATTTATTTTC

                  *    
       2367 -TTTCACTTTC
          1 ATTT-ATTTTC

                      
       2377 ATTTATTTTC
          1 ATTTATTTTC

                
       2387 ATTT
          1 ATTT

       2391 TTATCTATCG


Statistics
Matches: 29,  Mismatches: 3, Indels: 4
        0.81            0.08        0.11

Matches are distributed among these distances:
   9    3  0.10
  10   23  0.79
  11    3  0.10

ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66


Consensus pattern (10 bp):   
ATTTATTTTC
Done.