Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003504.1 Kokia drynarioides strain JFW-HI SEQ_116336, 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: 1817
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38


Found at i:337 original size:27 final size:29

Alignment explanation


    Indices: 306--377  Score: 71
    Period size: 30  Copynumber: 2.5  Consensus size: 29

        296 ACTAATATGT

                                          
        306 TATATAATTTATAAT-TAAATTT-ACATAA
          1 TATATAATTTATAATATAAATTTGAC-TAA

                                *           
        334 -ATAT-ATTCTATATATAATTAATTTGACTAA
          1 TATATAATT-TATA-AT-ATAAATTTGACTAA

                          
        364 TATATAATTTATAA
          1 TATATAATTTATAA

        378 AACAAGTAGA


Statistics
Matches: 36,  Mismatches: 1, Indels: 12
        0.73            0.02        0.24

Matches are distributed among these distances:
  26    3  0.08
  27    8  0.22
  28    2  0.06
  30   10  0.28
  31   10  0.28
  32    3  0.08

ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47


Consensus pattern (29 bp):   
TATATAATTTATAATATAAATTTGACTAA

Found at i:376 original size:29 final size:30

Alignment explanation


    Indices: 306--376  Score: 71
    Period size: 31  Copynumber: 2.4  Consensus size: 30

        296 ACTAATATGT

                                          
        306 TATATAA-TT-TATAATTAAATTTACATAA
          1 TATATAATTTATATAATTAAATTTACATAA

                  *                          
        334 -ATATATTCTATATATAATT-AATTTGAC-TAA
          1 TATATAAT-T-TATATAATTAAATTT-ACATAA

                         
        364 TATATAATTTATA
          1 TATATAATTTATA

        377 AAACAAGTAG


Statistics
Matches: 35,  Mismatches: 2, Indels: 11
        0.73            0.04        0.23

Matches are distributed among these distances:
  27    5  0.14
  29    5  0.14
  30   10  0.29
  31   15  0.43

ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48


Consensus pattern (30 bp):   
TATATAATTTATATAATTAAATTTACATAA
Done.