Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002536.1 Kokia drynarioides strain JFW-HI SEQ_114715, 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: 6823
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32


Found at i:6068 original size:28 final size:29

Alignment explanation


    Indices: 6016--6072  Score: 98
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       6006 TGAACTAGGA

                                         
       6016 TTTTTGGGAGATGGAGAATTATTTTCAAT
          1 TTTTTGGGAGATGGAGAATTATTTTCAAT

                            *            
       6045 TTTTTGGGAGATGGAGGATT-TTTTCAAT
          1 TTTTTGGGAGATGGAGAATTATTTTCAAT

       6073 AATTGGGAAG


Statistics
Matches: 27,  Mismatches: 1, Indels: 1
        0.93            0.03        0.03

Matches are distributed among these distances:
  28    8  0.30
  29   19  0.70

ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46


Consensus pattern (29 bp):   
TTTTTGGGAGATGGAGAATTATTTTCAAT

Found at i:6078 original size:27 final size:29

Alignment explanation


    Indices: 6019--6080  Score: 83
    Period size: 29  Copynumber: 2.2  Consensus size: 29

       6009 ACTAGGATTT

                                       **
       6019 TTGGGAGATGGAGAATTATTTTCAATTTT
          1 TTGGGAGATGGAGAATTATTTTCAATTAA

                         *               
       6048 TTGGGAGATGGAGGATT-TTTTCAA-TAA
          1 TTGGGAGATGGAGAATTATTTTCAATTAA

                  
       6075 TTGGGA
          1 TTGGGA

       6081 AGTAAATAAT


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

Matches are distributed among these distances:
  27    7  0.23
  28    7  0.23
  29   16  0.53

ACGTcount: A:0.27, C:0.03, G:0.29, T:0.40


Consensus pattern (29 bp):   
TTGGGAGATGGAGAATTATTTTCAATTAA
Done.