Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005314.1 Kokia drynarioides strain JFW-HI SEQ_119248, 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: 14304
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:893 original size:11 final size:11

Alignment explanation


    Indices: 877--914  Score: 53
    Period size: 11  Copynumber: 3.6  Consensus size: 11

        867 ATAGGATAAT

                       
        877 ATAATTTTAAA
          1 ATAATTTTAAA

                       
        888 ATAATTTT--A
          1 ATAATTTTAAA

                       
        897 ATAATTTTAAA
          1 ATAATTTTAAA

              *    
        908 ATCATTT
          1 ATAATTT

        915 GTTGACGTGA


Statistics
Matches: 24,  Mismatches: 1, Indels: 4
        0.83            0.03        0.14

Matches are distributed among these distances:
   9    9  0.38
  11   15  0.62

ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50


Consensus pattern (11 bp):   
ATAATTTTAAA

Found at i:902 original size:20 final size:20

Alignment explanation


    Indices: 877--914  Score: 67
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        867 ATAGGATAAT

                                
        877 ATAATTTTAAAATAATTTTA
          1 ATAATTTTAAAATAATTTTA

                         *    
        897 ATAATTTTAAAATCATTT
          1 ATAATTTTAAAATAATTT

        915 GTTGACGTGA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  20   17  1.00

ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50


Consensus pattern (20 bp):   
ATAATTTTAAAATAATTTTA

Found at i:1675 original size:66 final size:66

Alignment explanation


    Indices: 1605--1738  Score: 241
    Period size: 66  Copynumber: 2.0  Consensus size: 66

       1595 TAATAATGGT

                       *               *                                     
       1605 AGTAAAGAAGACAATGCCAAAAAAACAGCAACACGCTGCCATCCAAATTAAGATGCGACGCGAGC
          1 AGTAAAGAAGAAAATGCCAAAAAAACAACAACACGCTGCCATCCAAATTAAGATGCGACGCGAGC

             
       1670 G
         66 G

                                                                         *   
       1671 AGTAAAGAAGAAAATGCCAAAAAAACAACAACACGCTGCCATCCAAATTAAGATGCGACGCTAGC
          1 AGTAAAGAAGAAAATGCCAAAAAAACAACAACACGCTGCCATCCAAATTAAGATGCGACGCGAGC

             
       1736 G
         66 G

              
       1737 AG
          1 AG

       1739 ACTGAGGGTG


Statistics
Matches: 65,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  66   65  1.00

ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11


Consensus pattern (66 bp):   
AGTAAAGAAGAAAATGCCAAAAAAACAACAACACGCTGCCATCCAAATTAAGATGCGACGCGAGC
G
Done.