Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008359.1 Kokia drynarioides strain JFW-HI SEQ_123026, 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: 10091
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33


Found at i:4878 original size:16 final size:17

Alignment explanation


    Indices: 4859--4891  Score: 50
    Period size: 16  Copynumber: 2.0  Consensus size: 17

       4849 ATTTCATTTT

                             
       4859 ATTTTTATTAA-ATTAA
          1 ATTTTTATTAATATTAA

                  *          
       4875 ATTTTTTTTAATATTAA
          1 ATTTTTATTAATATTAA

       4892 TTTAGTCAAA


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  16   10  0.67
  17    5  0.33

ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61


Consensus pattern (17 bp):   
ATTTTTATTAATATTAA

Found at i:4959 original size:31 final size:30

Alignment explanation


    Indices: 4861--4967  Score: 83
    Period size: 31  Copynumber: 3.3  Consensus size: 30

       4851 TTCATTTTAT

                 *                         
       4861 TTTTATTAAATTAAAT-TTTTTTTAATATTA
          1 TTTTAGTAAA-TAAATATTTTTTTAATATTA

            *                                    
       4891 ATTTAGTCAAATAAAATAAATAATTTTTGT-ATATTA
          1 TTTTAGT-AAAT-AAAT--AT--TTTTT-TAATATTA

                                       *   
       4927 TTTTAGTAAATAAATATTTTTTTAAATTTTA
          1 TTTTAGTAAATAAATATTTTTTT-AATATTA

                *     
       4958 TTTTGGTAAA
          1 TTTTAGTAAA

       4968 AAACCAAAAT


Statistics
Matches: 62,  Mismatches: 5, Indels: 19
        0.72            0.06        0.22

Matches are distributed among these distances:
  29    1  0.02
  30   11  0.18
  31   21  0.34
  32    2  0.03
  34    5  0.08
  35    4  0.06
  36   17  0.27
  37    1  0.02

ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54


Consensus pattern (30 bp):   
TTTTAGTAAATAAATATTTTTTTAATATTA
Done.