Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001335.1 Kokia drynarioides strain JFW-HI SEQ_112778, 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: 5187
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36


Found at i:330 original size:20 final size:22

Alignment explanation


    Indices: 305--344  Score: 57
    Period size: 20  Copynumber: 1.9  Consensus size: 22

        295 GATCCCCAAC

                  *               
        305 AATAATTAAA-AAAT-ATAACT
          1 AATAATCAAATAAATCATAACT

                                
        325 AATAATCAAATAAATCATAA
          1 AATAATCAAATAAATCATAA

        345 AAATATTAAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    9  0.53
  21    4  0.24
  22    4  0.24

ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28


Consensus pattern (22 bp):   
AATAATCAAATAAATCATAACT

Found at i:3958 original size:19 final size:20

Alignment explanation


    Indices: 3933--3982  Score: 75
    Period size: 19  Copynumber: 2.5  Consensus size: 20

       3923 TATGTAAAAC

                                
       3933 GAAATGATAAAATCAATATA
          1 GAAATGATAAAATCAATATA

                             *  
       3953 -AAATGATAAAATCAATGTA
          1 GAAATGATAAAATCAATATA

                  *    
       3972 GAAATGCTAAA
          1 GAAATGATAAA

       3983 GTTCTATTCT


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
  19   18  0.67
  20    9  0.33

ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24


Consensus pattern (20 bp):   
GAAATGATAAAATCAATATA
Done.