Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009301.1 Kokia drynarioides strain JFW-HI SEQ_124008, 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: 4203
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33


Found at i:3244 original size:18 final size:18

Alignment explanation


    Indices: 3192--3255  Score: 51
    Period size: 18  Copynumber: 3.6  Consensus size: 18

       3182 CGTGGATTTC

                                
       3192 TATATATAATTTTATAAAGT
          1 TATATATAATTTTAT-AA-T

                      ***     
       3212 TATATA-AA-AGAATAAT
          1 TATATATAATTTTATAAT

                             *
       3228 TATATATAATTTTATAAA
          1 TATATATAATTTTATAAT

                *     
       3246 TATAAATAAT
          1 TATATATAAT

       3256 CAAAATATAA


Statistics
Matches: 34,  Mismatches: 8, Indels: 6
        0.71            0.17        0.12

Matches are distributed among these distances:
  16    7  0.21
  17    4  0.12
  18   15  0.44
  19    2  0.06
  20    6  0.18

ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44


Consensus pattern (18 bp):   
TATATATAATTTTATAAT

Found at i:3566 original size:16 final size:16

Alignment explanation


    Indices: 3542--3572  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       3532 TCAAAGATAA

                *           
       3542 TTATGTTTAGAACAAC
          1 TTATATTTAGAACAAC

                           
       3558 TTATATTTAGAACAA
          1 TTATATTTAGAACAA

       3573 TTGTGTTATT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39


Consensus pattern (16 bp):   
TTATATTTAGAACAAC
Done.