Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000564.1 Kokia drynarioides strain JFW-HI SEQ_111478, 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: 1804
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34


Found at i:1008 original size:16 final size:16

Alignment explanation


    Indices: 984--1030  Score: 51
    Period size: 16  Copynumber: 2.9  Consensus size: 16

        974 GGGAAATGTG

                *            
        984 TAAAAAAACAT-AAATA
          1 TAAATAAACATGAAA-A

                            
       1000 TAAATAAACATGAAAA
          1 TAAATAAACATGAAAA

            *       *      
       1016 CAAATAAAGATGAAA
          1 TAAATAAACATGAAA

       1031 TAAGCATAAA


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  16   24  0.89
  17    3  0.11

ACGTcount: A:0.70, C:0.06, G:0.06, T:0.17


Consensus pattern (16 bp):   
TAAATAAACATGAAAA

Found at i:1684 original size:21 final size:19

Alignment explanation


    Indices: 1660--1700  Score: 55
    Period size: 19  Copynumber: 2.1  Consensus size: 19

       1650 TTCGAAATAG

                                 
       1660 TTAAAAATATCAAAACTTTTT
          1 TTAAAAAT-T-AAAACTTTTT

                     *         
       1681 TTAAAAATTTAAACTTTTT
          1 TTAAAAATTAAAACTTTTT

             
       1700 T
          1 T

       1701 CCTTTAAAAT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  19   10  0.53
  20    1  0.05
  21    8  0.42

ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49


Consensus pattern (19 bp):   
TTAAAAATTAAAACTTTTT
Done.