Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011924.1 Kokia drynarioides strain JFW-HI SEQ_126922, 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: 1757
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:1702 original size:17 final size:17

Alignment explanation


    Indices: 1682--1757  Score: 98
    Period size: 17  Copynumber: 4.5  Consensus size: 17

       1672 ACTTATTTAT

                      *     *
       1682 TTTAAATTTATAATAAT
          1 TTTAAATTTAAAATAAA

                             
       1699 TTTAAATTTAAAATAAA
          1 TTTAAATTTAAAATAAA

                  *     *    
       1716 TTTAAACTTAAATTAAA
          1 TTTAAATTTAAAATAAA

              *              
       1733 TTCAAATTTAAAATAAA
          1 TTTAAATTTAAAATAAA

             *      
       1750 TCTAAATT
          1 TTTAAATT


Statistics
Matches: 50,  Mismatches: 9, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  17   50  1.00

ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43


Consensus pattern (17 bp):   
TTTAAATTTAAAATAAA

Found at i:1715 original size:11 final size:11

Alignment explanation


    Indices: 1701--1755  Score: 58
    Period size: 11  Copynumber: 4.9  Consensus size: 11

       1691 ATAATAATTT

                       
       1701 TAAATTTAAAA
          1 TAAATTTAAAA

                       *
       1712 TAAATTTAAACT
          1 TAAATTTAAA-A

                      *
       1724 TAAA-TTAAAT
          1 TAAATTTAAAA

                        
       1734 TCAAATTTAAAA
          1 T-AAATTTAAAA

                 *    
       1746 TAAATCTAAA
          1 TAAATTTAAA

       1756 TT


Statistics
Matches: 38,  Mismatches: 3, Indels: 6
        0.81            0.06        0.13

Matches are distributed among these distances:
  10    2  0.05
  11   26  0.68
  12   10  0.26

ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36


Consensus pattern (11 bp):   
TAAATTTAAAA

Found at i:1755 original size:23 final size:23

Alignment explanation


    Indices: 1713--1757  Score: 65
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       1703 AATTTAAAAT

                      *            
       1713 AAATTTAAACTTAAATTAAATTC
          1 AAATTTAAACATAAATTAAATTC

                                   
       1736 AAATTTAAA-ATAAATCTAAATT
          1 AAATTTAAACATAAAT-TAAATT


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  22    5  0.25
  23   15  0.75

ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38


Consensus pattern (23 bp):   
AAATTTAAACATAAATTAAATTC
Done.