Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010586.1 Kokia drynarioides strain JFW-HI SEQ_125513, 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: 2437
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.34

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:593 original size:17 final size:17

Alignment explanation


    Indices: 573--606  Score: 68
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        563 TTTGCTATTT

                             
        573 TTTTAAAAGGATTTAAA
          1 TTTTAAAAGGATTTAAA

                             
        590 TTTTAAAAGGATTTAAA
          1 TTTTAAAAGGATTTAAA

        607 AACTTTCTCT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   17  1.00

ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41


Consensus pattern (17 bp):   
TTTTAAAAGGATTTAAA

Found at i:1522 original size:17 final size:17

Alignment explanation


    Indices: 1497--1567  Score: 63
    Period size: 17  Copynumber: 4.1  Consensus size: 17

       1487 GGACTTTTAA

                *        **  
       1497 TTAAGTTTTAAATCCAT
          1 TTAAATTTTAAATAAAT

                       *     
       1514 TTAAATTTTAATTAAAT
          1 TTAAATTTTAAATAAAT

                         *    
       1531 TTAAA-TTTAAAGCAAAT
          1 TTAAATTTTAAA-TAAAT

                     *        
       1548 TTAAATTTAAAAATAAAT
          1 TTAAATTT-TAAATAAAT

              
       1566 TT
          1 TT

       1568 GAATCAATTT


Statistics
Matches: 43,  Mismatches: 8, Indels: 5
        0.77            0.14        0.09

Matches are distributed among these distances:
  16    5  0.12
  17   27  0.63
  18    8  0.19
  19    3  0.07

ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45


Consensus pattern (17 bp):   
TTAAATTTTAAATAAAT

Found at i:1526 original size:6 final size:6

Alignment explanation


    Indices: 1512--1558  Score: 53
    Period size: 6  Copynumber: 8.2  Consensus size: 6

       1502 TTTTAAATCC

                       *                         **                
       1512 ATTTAA ATTTTA A-TTAA ATTTAA ATTTAA A-GCAA ATTTAA ATTTAA
          1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA

             
       1558 A
          1 A

       1559 AATAAATTTG


Statistics
Matches: 33,  Mismatches: 6, Indels: 4
        0.77            0.14        0.09

Matches are distributed among these distances:
   5    7  0.21
   6   26  0.79

ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45


Consensus pattern (6 bp):   
ATTTAA
Done.