Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000590.1 Kokia drynarioides strain JFW-HI SEQ_111523, 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: 3008
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36


Found at i:174 original size:31 final size:31

Alignment explanation


    Indices: 138--224  Score: 115
    Period size: 29  Copynumber: 2.9  Consensus size: 31

        128 CCCAAAAACG

                                         * 
        138 ATAATATGAAATAAACATAAGTGATTAAAGT
          1 ATAATATGAAATAAACATAAGTGATTAAAAT

            *        **                    
        169 GTAATAT--TTTAAACATAAGTGATTAAAAT
          1 ATAATATGAAATAAACATAAGTGATTAAAAT

                             *         
        198 ATAATATGAAATAAACAAAAGTGATTA
          1 ATAATATGAAATAAACATAAGTGATTA

        225 TTTTTGTGTT


Statistics
Matches: 46,  Mismatches: 8, Indels: 4
        0.79            0.14        0.07

Matches are distributed among these distances:
  29   25  0.54
  31   21  0.46

ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31


Consensus pattern (31 bp):   
ATAATATGAAATAAACATAAGTGATTAAAAT

Found at i:2870 original size:17 final size:17

Alignment explanation


    Indices: 2844--2880  Score: 56
    Period size: 17  Copynumber: 2.2  Consensus size: 17

       2834 AATAATTTAT

                        *    
       2844 AAATAATTAAAATATTC
          1 AAATAATTAAAAAATTC

                 *           
       2861 AAATATTTAAAAAATTC
          1 AAATAATTAAAAAATTC

               
       2878 AAA
          1 AAA

       2881 AATAAAATTT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  17   18  1.00

ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32


Consensus pattern (17 bp):   
AAATAATTAAAAAATTC
Done.