Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008077.1 Kokia drynarioides strain JFW-HI SEQ_122733, 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: 26016
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34


Found at i:1051 original size:15 final size:15

Alignment explanation


    Indices: 1001--1058  Score: 64
    Period size: 15  Copynumber: 3.8  Consensus size: 15

        991 ATTTAATTAT

                             
       1001 TTAATTTTGAT-TTATA
          1 TTAATTTT-ATATT-TA

                   *       
       1017 TTAATTTAATATTTA
          1 TTAATTTTATATTTA

            *             *
       1032 ATAATTTTATATTTT
          1 TTAATTTTATATTTA

                        
       1047 TTAATTTTATAT
          1 TTAATTTTATAT

       1059 AGAGTCATCT


Statistics
Matches: 36,  Mismatches: 5, Indels: 3
        0.82            0.11        0.07

Matches are distributed among these distances:
  15   27  0.75
  16    9  0.25

ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64


Consensus pattern (15 bp):   
TTAATTTTATATTTA

Found at i:19032 original size:29 final size:29

Alignment explanation


    Indices: 18987--19044  Score: 98
    Period size: 29  Copynumber: 2.0  Consensus size: 29

      18977 GAACAAATAA

                              *          
      18987 GTACTTAAAATTAAGGCTTGTTTTAAAAG
          1 GTACTTAAAATTAAGGCTGGTTTTAAAAG

                        *                
      19016 GTACTTAAAATTTAGGCTGGTTTTAAAAG
          1 GTACTTAAAATTAAGGCTGGTTTTAAAAG

      19045 ATCTTTCTTG


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  29   27  1.00

ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38


Consensus pattern (29 bp):   
GTACTTAAAATTAAGGCTGGTTTTAAAAG

Found at i:22643 original size:14 final size:14

Alignment explanation


    Indices: 22625--22658  Score: 50
    Period size: 14  Copynumber: 2.4  Consensus size: 14

      22615 TGGCTGTATT

                     *    
      22625 AATTTTTTTTTAAA
          1 AATTTTTTTATAAA

            *             
      22639 TATTTTTTTATAAA
          1 AATTTTTTTATAAA

                  
      22653 AATTTT
          1 AATTTT

      22659 AAAAAATGTA


Statistics
Matches: 17,  Mismatches: 3, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  14   17  1.00

ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65


Consensus pattern (14 bp):   
AATTTTTTTATAAA
Done.