Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009690.1 Kokia drynarioides strain JFW-HI SEQ_124408, 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: 3295
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:261 original size:24 final size:23

Alignment explanation


    Indices: 227--284  Score: 71
    Period size: 23  Copynumber: 2.4  Consensus size: 23

        217 AGTTATCCAA

                                     
        227 AAAAAGAAAAACAAGTAAAAAGAAC
          1 AAAAAG-AAAACAAGTAAAAA-AAC

                      **        *  
        252 AAAAAGAAAATGAGTAAAAATAC
          1 AAAAAGAAAACAAGTAAAAAAAC

                      
        275 AAAAAGAAAA
          1 AAAAAGAAAA

        285 GAGTAAGAAA


Statistics
Matches: 30,  Mismatches: 3, Indels: 2
        0.86            0.09        0.06

Matches are distributed among these distances:
  23   12  0.40
  24   12  0.40
  25    6  0.20

ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07


Consensus pattern (23 bp):   
AAAAAGAAAACAAGTAAAAAAAC

Found at i:288 original size:22 final size:24

Alignment explanation


    Indices: 240--290  Score: 79
    Period size: 23  Copynumber: 2.2  Consensus size: 24

        230 AAGAAAAACA

                                    
        240 AGTAAAAAGAACAAAAAGAAAATG
          1 AGTAAAAAGAACAAAAAGAAAATG

                     *              
        264 AGTAAAAA-TACAAAAAGAAAA-G
          1 AGTAAAAAGAACAAAAAGAAAATG

                 
        286 AGTAA
          1 AGTAA

        291 GAAAAATTGT


Statistics
Matches: 26,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  22    6  0.23
  23   12  0.46
  24    8  0.31

ACGTcount: A:0.71, C:0.04, G:0.16, T:0.10


Consensus pattern (24 bp):   
AGTAAAAAGAACAAAAAGAAAATG
Done.