Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006482.1 Kokia drynarioides strain JFW-HI SEQ_121065, 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: 8031
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31


Found at i:2211 original size:7 final size:7

Alignment explanation


    Indices: 2199--2252  Score: 58
    Period size: 7  Copynumber: 7.9  Consensus size: 7

       2189 TTAGCGAAAA

                   
       2199 GTCAATG
          1 GTCAATG

                   
       2206 GTCAATG
          1 GTCAATG

                  *
       2213 GTCAATA
          1 GTCAATG

                   
       2220 GTCAA--
          1 GTCAATG

                   
       2225 GTCAATG
          1 GTCAATG

                 * 
       2232 GTCAACG
          1 GTCAATG

            *      
       2239 ATCAATG
          1 GTCAATG

                   
       2246 GTTCAAT
          1 G-TCAAT

       2253 TCGATCAAAG


Statistics
Matches: 39,  Mismatches: 5, Indels: 5
        0.80            0.10        0.10

Matches are distributed among these distances:
   5    5  0.13
   7   29  0.74
   8    5  0.13

ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28


Consensus pattern (7 bp):   
GTCAATG

Found at i:2277 original size:23 final size:23

Alignment explanation


    Indices: 2251--2328  Score: 122
    Period size: 23  Copynumber: 3.4  Consensus size: 23

       2241 CAATGGTTCA

                         *   *     
       2251 ATTCGATCAAAGTTAACAATTCG
          1 ATTCGATCAAAGTCAACGATTCG

                                   
       2274 ATTCGATCAAAGTCAACGATTCG
          1 ATTCGATCAAAGTCAACGATTCG

                                  *
       2297 ATTCGATCAAAGTCAACGATTCA
          1 ATTCGATCAAAGTCAACGATTCG

                      
       2320 ATTCG-TCAA
          1 ATTCGATCAA

       2329 CAGATTCGGG


Statistics
Matches: 52,  Mismatches: 3, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  22    4  0.08
  23   48  0.92

ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28


Consensus pattern (23 bp):   
ATTCGATCAAAGTCAACGATTCG
Done.