Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005194.1 Kokia drynarioides strain JFW-HI SEQ_119056, 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: 2591
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36


Found at i:495 original size:17 final size:16

Alignment explanation


    Indices: 461--514  Score: 56
    Period size: 16  Copynumber: 3.2  Consensus size: 16

        451 ACTGGACCTT

                            
        461 TTTTAAATTAATTAAA
          1 TTTTAAATTAATTAAA

                              
        477 TTTTAAATTCAAATT-AA
          1 TTTTAAATT--AATTAAA

                   *          
        494 TTTTAAGCTTAATTTAAA
          1 TTTTAA-ATTAA-TTAAA

               
        512 TTT
          1 TTT

        515 AAACTAAAAA


Statistics
Matches: 32,  Mismatches: 1, Indels: 8
        0.78            0.02        0.20

Matches are distributed among these distances:
  16   11  0.34
  17   10  0.31
  18   11  0.34

ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52


Consensus pattern (16 bp):   
TTTTAAATTAATTAAA

Found at i:1918 original size:27 final size:28

Alignment explanation


    Indices: 1879--1938  Score: 77
    Period size: 27  Copynumber: 2.2  Consensus size: 28

       1869 TCAAAAATTC

                  *        **   *       
       1879 CATTAAGAAGAGGATCGAAGGAAACAAT
          1 CATTAAAAAGAGGATAAAAGAAAACAAT

                                        
       1907 -ATTAAAAAGAGGATAAAAGAAAACAAT
          1 CATTAAAAAGAGGATAAAAGAAAACAAT

                 
       1934 CATTA
          1 CATTA

       1939 GTTGAAAATT


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  27   23  0.85
  28    4  0.15

ACGTcount: A:0.57, C:0.08, G:0.18, T:0.17


Consensus pattern (28 bp):   
CATTAAAAAGAGGATAAAAGAAAACAAT
Done.