Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003555.1 Kokia drynarioides strain JFW-HI SEQ_116415, 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: 11597
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34

Warning! 39 characters in sequence are not A, C, G, or T


Found at i:9926 original size:30 final size:32

Alignment explanation


    Indices: 9867--9927  Score: 83
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       9857 ACAAGAAAAT

                               *            
       9867 AAAAGAGGCCCACTCTATATATCATAAATTTG
          1 AAAAGAGGCCCACTCTATAAATCATAAATTTG

                                            
       9899 AAAAGAGGCCCA-TCCTA-AAAT-ATAAATTT
          1 AAAAGAGGCCCACT-CTATAAATCATAAATTT

       9928 CCAATATATG


Statistics
Matches: 27,  Mismatches: 1, Indels: 4
        0.84            0.03        0.12

Matches are distributed among these distances:
  30    8  0.30
  31    4  0.15
  32   15  0.56

ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26


Consensus pattern (32 bp):   
AAAAGAGGCCCACTCTATAAATCATAAATTTG

Found at i:11202 original size:104 final size:104

Alignment explanation


    Indices: 10852--11204  Score: 384
    Period size: 104  Copynumber: 3.4  Consensus size: 104

      10842 ATTGTTATTT

                                           *        *           *            
      10852 CTACGTTCACAACTGATGTTATTAAGGCTAGTTGATTTAATATCGCAGCCTCCGATTATTTGAGT
          1 CTACGTTCACAACTGATGTTATTAAGGCTAGCTGATTTAAGATCGCAGCCTCTGATTATTTGAGT

                            *     *    *           
      10917 TCGTTGATTTAATATCACAACTTCTAATAGCTCACTGAC
         66 TCGTTGATTTAATATCGCAACTCCTAACAGCTCACTGAC

            *         ***                 *         *  * * *                 
      10956 TTACGTTCACGGTTGATGTTATTAAGGCTAACTGATTTAAAATTGTAACCT-TCGATTATTTGAG
          1 CTACGTTCACAACTGATGTTATTAAGGCTAGCTGATTTAAGATCGCAGCCTCT-GATTATTTGAG

              ***        *  *       *         **   *
      11020 TTAACTGATTTAAGATTGCAACTCTTAACAGCTCGTTGAT
         65 TTCGTTGATTTAATATCGCAACTCCTAACAGCTCACTGAC

                       **            *       *              *                
      11060 CTACGTTCACAGTTGATGTTATTAAAGCTAGCTAATTTAAGATCGCAGTCTCTGATTATTTGAGT
          1 CTACGTTCACAACTGATGTTATTAAGGCTAGCTGATTTAAGATCGCAGCCTCTGATTATTTGAGT

                                                   
      11125 TCGTTGATTTAATATCGCAACTCCTAACAGCTCACTGAC
         66 TCGTTGATTTAATATCGCAACTCCTAACAGCTCACTGAC

                          *  *         *   * *       
      11164 CTACGTTCACAACTAATATTATTAAGGATAGTTTATTTAAG
          1 CTACGTTCACAACTGATGTTATTAAGGCTAGCTGATTTAAG

      11205 GCTTGTGATT


Statistics
Matches: 197,  Mismatches: 50, Indels: 4
        0.78            0.20        0.02

Matches are distributed among these distances:
 104  196  0.99
 105    1  0.01

ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37


Consensus pattern (104 bp):   
CTACGTTCACAACTGATGTTATTAAGGCTAGCTGATTTAAGATCGCAGCCTCTGATTATTTGAGT
TCGTTGATTTAATATCGCAACTCCTAACAGCTCACTGAC
Done.