Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008316.1 Kokia drynarioides strain JFW-HI SEQ_122981, 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: 2939
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37


Found at i:229 original size:50 final size:50

Alignment explanation


    Indices: 136--230  Score: 136
    Period size: 50  Copynumber: 1.9  Consensus size: 50

        126 GCTTGAACAC

                           *            * *      **           
        136 GGGCTTGTGTCAAGGTCGTGTGTCATTATACTAGGTTGTAGGAGGTACAT
          1 GGGCTTGTGTCAAGGCCGTGTGTCATTAAAATAGGTTACAGGAGGTACAT

                       *                                 
        186 GGGCTTGTGTCCAGGCCGTGTGTCATTAAAATAGGTTACAGGAGG
          1 GGGCTTGTGTCAAGGCCGTGTGTCATTAAAATAGGTTACAGGAGG

        231 CACACGATCC


Statistics
Matches: 39,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  50   39  1.00

ACGTcount: A:0.21, C:0.14, G:0.35, T:0.31


Consensus pattern (50 bp):   
GGGCTTGTGTCAAGGCCGTGTGTCATTAAAATAGGTTACAGGAGGTACAT

Found at i:2858 original size:17 final size:15

Alignment explanation


    Indices: 2824--2862  Score: 51
    Period size: 17  Copynumber: 2.5  Consensus size: 15

       2814 CTGAAATACC

                           
       2824 ATATTGAATTGATTG
          1 ATATTGAATTGATTG

                         *   
       2839 ATATGTGAACTTGGTTG
          1 ATAT-TGAA-TTGATTG

                   
       2856 ATATTGA
          1 ATATTGA

       2863 TGTACAAATT


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  15    4  0.19
  16    7  0.33
  17   10  0.48

ACGTcount: A:0.31, C:0.03, G:0.23, T:0.44


Consensus pattern (15 bp):   
ATATTGAATTGATTG
Done.