Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006933.1 Kokia drynarioides strain JFW-HI SEQ_121536, 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: 5966
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35


Found at i:1028 original size:25 final size:25

Alignment explanation


    Indices: 1000--1082  Score: 130
    Period size: 25  Copynumber: 3.3  Consensus size: 25

        990 ATAAATTTAT

                                     
       1000 GCTCTTTCGACCCAGACAAAATTAC
          1 GCTCTTTCGACCCAGACAAAATTAC

                          *   * *    
       1025 GCTCTTTCGACCCATACAGATTTAC
          1 GCTCTTTCGACCCAGACAAAATTAC

                      *              
       1050 GCTCTTTCGAGCCAGACAAAATTAC
          1 GCTCTTTCGACCCAGACAAAATTAC

                    
       1075 GCTCTTTC
          1 GCTCTTTC

       1083 AAGCTAAAAT


Statistics
Matches: 51,  Mismatches: 7, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  25   51  1.00

ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29


Consensus pattern (25 bp):   
GCTCTTTCGACCCAGACAAAATTAC

Found at i:4456 original size:30 final size:32

Alignment explanation


    Indices: 4398--4468  Score: 103
    Period size: 30  Copynumber: 2.3  Consensus size: 32

       4388 TTTTAATGAT

                     *                      
       4398 AAAATTATATTTTAATTTCTTCAAAAATTATA
          1 AAAATTATAATTTAATTTCTTCAAAAATTATA

                                 *          
       4430 AAAATT-TAATTTAATTT-TTTAAAAATTATA
          1 AAAATTATAATTTAATTTCTTCAAAAATTATA

                      
       4460 AAAA-TATAA
          1 AAAATTATAA

       4469 ACTATTAAAA


Statistics
Matches: 36,  Mismatches: 2, Indels: 4
        0.86            0.05        0.10

Matches are distributed among these distances:
  29    1  0.03
  30   19  0.53
  31   10  0.28
  32    6  0.17

ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45


Consensus pattern (32 bp):   
AAAATTATAATTTAATTTCTTCAAAAATTATA
Done.