Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008204.1 Kokia drynarioides strain JFW-HI SEQ_122866, 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: 7747
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34


Found at i:642 original size:112 final size:111

Alignment explanation


    Indices: 412--741  Score: 383
    Period size: 112  Copynumber: 2.9  Consensus size: 111

        402 TCTTATATTC

                *           *   *     *                                      
        412 TTAGACCACTAACCGTCATTGCAAT-GAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTG
          1 TTAGTCCACTAACCGTTATTTCAATACAAAAATGCTTGAACA-GGTTGTAAGGTGGATAAAATTG

                     *       *     **           *          
        476 AATTTTATTGGAGGCAAGGCTCGCGTGAATGAAAAGATTAAGAATCA
         65 AATTTTATTAGAGGCAAAGCTCGTATGAATGAAAAGGTTAAGAATCA

                    * *  *                **                               **
        523 TTAGTCCAGTGACTGTTATTTCAATACAAACGTGCTTGAACATGGTTGTAAGGTGGATAAAATAA
          1 TTAGTCCACTAACCGTTATTTCAATACAAAAATGCTTGAACA-GGTTGTAAGGTGGATAAAATTG

                 *        *          *                     
        588 AATTTCATTAGAGGTAAAGCTCGTACGAATGAAAAGGTTAAGAATCA
         65 AATTTTATTAGAGGCAAAGCTCGTATGAATGAAAAGGTTAAGAATCA

              *                   *  *                                   *   
        635 TTGGTCCACTAACCGTTATTTCGATGCAAAAATGCTTGAACCAGGTTGTAAGGTGGATAAATTTG
          1 TTAGTCCACTAACCGTTATTTCAATACAAAAATGCTTGAA-CAGGTTGTAAGGTGGATAAAATTG

             *       **                               
        700 ACTTTTATTTTAGGCAAAGCTCGTATGAATGAAAAGGATTAA
         65 AATTTTATTAGAGGCAAAGCTCGTATGAATGAAAAGG-TTAA

        742 ATTTACCTAT


Statistics
Matches: 179,  Mismatches: 37, Indels: 4
        0.81            0.17        0.02

Matches are distributed among these distances:
 111   19  0.11
 112  154  0.86
 113    6  0.03

ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29


Consensus pattern (111 bp):   
TTAGTCCACTAACCGTTATTTCAATACAAAAATGCTTGAACAGGTTGTAAGGTGGATAAAATTGA
ATTTTATTAGAGGCAAAGCTCGTATGAATGAAAAGGTTAAGAATCA

Found at i:6175 original size:20 final size:21

Alignment explanation


    Indices: 6134--6188  Score: 60
    Period size: 20  Copynumber: 2.7  Consensus size: 21

       6124 TAATTTTTTT

                        *         
       6134 TAAAAATAAT-TCACAACTAAA
          1 TAAAAATAATATGACAAC-AAA

                                 
       6155 TAAAAATAATATGACAA-AAA
          1 TAAAAATAATATGACAACAAA

               *     *    
       6175 TAATAATAACATGA
          1 TAAAAATAATATGA

       6189 ACATTGATAT


Statistics
Matches: 30,  Mismatches: 3, Indels: 3
        0.83            0.08        0.08

Matches are distributed among these distances:
  20   15  0.50
  21   10  0.33
  22    5  0.17

ACGTcount: A:0.64, C:0.09, G:0.04, T:0.24


Consensus pattern (21 bp):   
TAAAAATAATATGACAACAAA
Done.