Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000166.1 Kokia drynarioides strain JFW-HI SEQ_110836, 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: 3664
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25


Found at i:1655 original size:10 final size:10

Alignment explanation


    Indices: 1640--1683  Score: 54
    Period size: 10  Copynumber: 4.4  Consensus size: 10

       1630 CGATAGATAA

                      
       1640 AAATGAAAAT
          1 AAATGAAAAT

                    * 
       1650 AAATGAAAGT
          1 AAATGAAAAT

                     * 
       1660 GAAA-GAAATT
          1 -AAATGAAAAT

                      
       1670 AAATGAAAAT
          1 AAATGAAAAT

                
       1680 AAAT
          1 AAAT

       1684 AATAGAAATA


Statistics
Matches: 29,  Mismatches: 3, Indels: 4
        0.81            0.08        0.11

Matches are distributed among these distances:
   9    3  0.10
  10   23  0.79
  11    3  0.10

ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20


Consensus pattern (10 bp):   
AAATGAAAAT

Found at i:1896 original size:10 final size:11

Alignment explanation


    Indices: 1850--1895  Score: 51
    Period size: 11  Copynumber: 4.2  Consensus size: 11

       1840 GATAAAAAGG

                        
       1850 AAATAAATAAT-
          1 AAAT-AATAATA

                *       
       1861 AAATGATAAATA
          1 AAATAAT-AATA

                       
       1873 AAATAA-AATA
          1 AAATAATAATA

                       
       1883 AAATAATAATA
          1 AAATAATAATA

              
       1894 AA
          1 AA

       1896 TTAACAAAGG


Statistics
Matches: 30,  Mismatches: 2, Indels: 6
        0.79            0.05        0.16

Matches are distributed among these distances:
  10   12  0.40
  11   13  0.43
  12    5  0.17

ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24


Consensus pattern (11 bp):   
AAATAATAATA
Done.