Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012799.1 Kokia drynarioides strain JFW-HI SEQ_127812, 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: 3192
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:182 original size:11 final size:11

Alignment explanation


    Indices: 147--193  Score: 51
    Period size: 11  Copynumber: 4.2  Consensus size: 11

        137 CCTATTTCCT

                       
        147 TTGTCATTGCA
          1 TTGTCATTGCA

              * *       
        158 TTTTAATTGTCA
          1 TTGTCATTG-CA

                        
        170 TTG-CATATGCA
          1 TTGTCAT-TGCA

                       
        181 TTGTCATTGCA
          1 TTGTCATTGCA

              
        192 TT
          1 TT

        194 TCCATTTGTC


Statistics
Matches: 29,  Mismatches: 4, Indels: 6
        0.74            0.10        0.15

Matches are distributed among these distances:
  11   20  0.69
  12    9  0.31

ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49


Consensus pattern (11 bp):   
TTGTCATTGCA

Found at i:199 original size:17 final size:17

Alignment explanation


    Indices: 140--199  Score: 75
    Period size: 17  Copynumber: 3.5  Consensus size: 17

        130 ATTGTCACCT

                  *          
        140 ATTTCCTTTGTCATTGC
          1 ATTTCCATTGTCATTGC

                **           
        157 ATTTTAATTGTCATTGC
          1 ATTTCCATTGTCATTGC

              * *            
        174 ATATGCATTGTCATTGC
          1 ATTTCCATTGTCATTGC

                     
        191 ATTTCCATT
          1 ATTTCCATT

        200 TGTCTTTGTA


Statistics
Matches: 35,  Mismatches: 8, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  17   35  1.00

ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50


Consensus pattern (17 bp):   
ATTTCCATTGTCATTGC
Done.