Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003896.1 Kokia drynarioides strain JFW-HI SEQ_116946, 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, 779

Length: 1299
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35


Found at i:557 original size:17 final size:17

Alignment explanation


    Indices: 535--594  Score: 61
    Period size: 17  Copynumber: 3.5  Consensus size: 17

        525 AAGAATATGA

                  *          
        535 AAGGTTGAGGAAGATGG
          1 AAGGTTAAGGAAGATGG

                        *      
        552 AAGGTTAAAGGTCA-A-GG
          1 AAGGTT-AAGG-AAGATGG

                              
        569 AGAGGTTAAGGAAGATGG
          1 A-AGGTTAAGGAAGATGG

                    
        587 AAGGTTAA
          1 AAGGTTAA

        595 AAGTCAAGGA


Statistics
Matches: 35,  Mismatches: 3, Indels: 10
        0.73            0.06        0.21

Matches are distributed among these distances:
  16    1  0.03
  17   21  0.60
  18   12  0.34
  19    1  0.03

ACGTcount: A:0.40, C:0.02, G:0.40, T:0.18


Consensus pattern (17 bp):   
AAGGTTAAGGAAGATGG

Found at i:575 original size:35 final size:35

Alignment explanation


    Indices: 536--604  Score: 120
    Period size: 35  Copynumber: 2.0  Consensus size: 35

        526 AGAATATGAA

                 *                   *         
        536 AGGTTGAGGAAGATGGAAGGTTAAAGGTCAAGGAG
          1 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGAG

                                              
        571 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGA
          1 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGA

        605 AGATGAAAGG


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  35   32  1.00

ACGTcount: A:0.41, C:0.03, G:0.39, T:0.17


Consensus pattern (35 bp):   
AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGAG

Found at i:605 original size:17 final size:17

Alignment explanation


    Indices: 550--606  Score: 55
    Period size: 17  Copynumber: 3.3  Consensus size: 17

        540 TGAGGAAGAT

                       *     
        550 GGAAGGTTAAAGGTCAA
          1 GGAAGGTTAAAAGTCAA

                               *
        567 GGAGAGGTTAAGGAAG--AT
          1 GGA-AGGTTAA--AAGTCAA

                             
        585 GGAAGGTTAAAAGTCAA
          1 GGAAGGTTAAAAGTCAA

                 
        602 GGAAG
          1 GGAAG

        607 ATGAAAGGTT


Statistics
Matches: 32,  Mismatches: 3, Indels: 10
        0.71            0.07        0.22

Matches are distributed among these distances:
  15    3  0.09
  17   16  0.50
  18   11  0.34
  20    2  0.06

ACGTcount: A:0.42, C:0.04, G:0.39, T:0.16


Consensus pattern (17 bp):   
GGAAGGTTAAAAGTCAA
Done.