Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000583.1 Kokia drynarioides strain JFW-HI SEQ_111512, 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: 9646
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32


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

Alignment explanation


    Indices: 1--25  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

                                                 
          1 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 A

         26 GATTCTTGTA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

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


Consensus pattern (2 bp):   
AT

Found at i:3484 original size:2 final size:2

Alignment explanation


    Indices: 3477--3503  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       3467 AATACATCTT

                                                    
       3477 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

       3504 GAAGTGTTAT


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


Consensus pattern (2 bp):   
TA

Found at i:4591 original size:12 final size:12

Alignment explanation


    Indices: 4575--4631  Score: 55
    Period size: 11  Copynumber: 4.8  Consensus size: 12

       4565 CCACAAAAGC

                        
       4575 AAATAAAAACTA
          1 AAATAAAAACTA

            *           
       4587 GAAT-AAAACTA
          1 AAATAAAAACTA

                       * 
       4598 AAATATAAAA-GA
          1 AAATA-AAAACTA

                         
       4610 AAATAAAAACTGA
          1 AAATAAAAACT-A

             *       
       4623 ATATAAAAA
          1 AAATAAAAA

       4632 AATTAAGGGA


Statistics
Matches: 36,  Mismatches: 5, Indels: 7
        0.75            0.10        0.15

Matches are distributed among these distances:
  11   14  0.39
  12    9  0.25
  13   13  0.36

ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18


Consensus pattern (12 bp):   
AAATAAAAACTA
Done.