Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005609.1 Kokia drynarioides strain JFW-HI SEQ_119754, 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: 5186
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--32  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

                                                           
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

         33 CATACGCACA


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:1630 original size:2 final size:2

Alignment explanation


    Indices: 1625--1651  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       1615 CTTTAAAACA

                                                    
       1625 AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT A

       1652 AAAACCAAAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:3932 original size:26 final size:26

Alignment explanation


    Indices: 3902--3964  Score: 85
    Period size: 26  Copynumber: 2.4  Consensus size: 26

       3892 TTATTAAAAA

                                        
       3902 CAAATAATAATAA-AACTATCAA-ATAT
          1 CAAATAATAATAATAACTA--AATATAT

                                    * 
       3928 CAAATAATAATAATAACTAAATATTT
          1 CAAATAATAATAATAACTAAATATAT

                       
       3954 CAAATAATAAT
          1 CAAATAATAAT

       3965 GAAAGTACTA


Statistics
Matches: 34,  Mismatches: 1, Indels: 4
        0.87            0.03        0.10

Matches are distributed among these distances:
  25    2  0.06
  26   27  0.79
  27    5  0.15

ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30


Consensus pattern (26 bp):   
CAAATAATAATAATAACTAAATATAT

Done.