Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008135.1 Kokia drynarioides strain JFW-HI SEQ_122793, 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: 2417
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31


Found at i:192 original size:18 final size:18

Alignment explanation


    Indices: 171--209  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 18

        161 ATTAAAAATT

                       **     
        171 ATTTTAATATTTTATTTA
          1 ATTTTAATATTCCATTTA

                              
        189 ATTTTAATATTCCATTTA
          1 ATTTTAATATTCCATTTA

               
        207 ATT
          1 ATT

        210 AAATTTTAAG


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   19  1.00

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


Consensus pattern (18 bp):   
ATTTTAATATTCCATTTA

Found at i:403 original size:18 final size:19

Alignment explanation


    Indices: 380--422  Score: 54
    Period size: 18  Copynumber: 2.4  Consensus size: 19

        370 AAAAAAAAGT

                       *       
        380 TAAAAAATATATAA-TAAA
          1 TAAAAAATATAAAATTAAA

                  *            
        398 TAAAAACTATAAAATTAAA
          1 TAAAAAATATAAAATTAAA

                   
        417 -AAAAAA
          1 TAAAAAA

        423 GTTTAAAAAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 2
        0.81            0.12        0.08

Matches are distributed among these distances:
  18   17  0.81
  19    4  0.19

ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23


Consensus pattern (19 bp):   
TAAAAAATATAAAATTAAA
Done.