Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000285.1 Kokia drynarioides strain JFW-HI SEQ_111037, 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: 5279
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33


Found at i:3286 original size:16 final size:16

Alignment explanation


    Indices: 3265--3295  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       3255 GTCACATAAA

                   *        
       3265 AAAAGAAGAAGAAAAG
          1 AAAAGAAAAAGAAAAG

                           
       3281 AAAAGAAAAAGAAAA
          1 AAAAGAAAAAGAAAA

       3296 ATATTTATAT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00


Consensus pattern (16 bp):   
AAAAGAAAAAGAAAAG

Found at i:4003 original size:26 final size:26

Alignment explanation


    Indices: 3974--4028  Score: 92
    Period size: 26  Copynumber: 2.1  Consensus size: 26

       3964 CACCCAGGAA

                       *              
       3974 TGTCGCTGCATTAACATGTCCAAAAT
          1 TGTCGCTGCATGAACATGTCCAAAAT

                           *          
       4000 TGTCGCTGCATGAACGTGTCCAAAAT
          1 TGTCGCTGCATGAACATGTCCAAAAT

               
       4026 TGT
          1 TGT

       4029 GCCCAGAATT


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

Matches are distributed among these distances:
  26   27  1.00

ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31


Consensus pattern (26 bp):   
TGTCGCTGCATGAACATGTCCAAAAT

Found at i:5081 original size:26 final size:26

Alignment explanation


    Indices: 5037--5133  Score: 106
    Period size: 26  Copynumber: 3.7  Consensus size: 26

       5027 GACTAGGGCG

                   *                  
       5037 CAATTCTTGACATGCTCATGCAGTGA
          1 CAATTCTGGACATGCTCATGCAGTGA

               *          *           
       5063 CAACTCTGGACATGTTCATGCAGTGA
          1 CAATTCTGGACATGCTCATGCAGTGA

            *      *    *  *    *      
       5089 TAATTCTAGACAAGTTTC-TACAGTGA
          1 CAATTCTGGACATG-CTCATGCAGTGA

                               
       5115 CAATTCTGGACATGCTCAT
          1 CAATTCTGGACATGCTCAT

       5134 TCAACGACAT


Statistics
Matches: 57,  Mismatches: 12, Indels: 4
        0.78            0.16        0.05

Matches are distributed among these distances:
  25    2  0.04
  26   52  0.91
  27    3  0.05

ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31


Consensus pattern (26 bp):   
CAATTCTGGACATGCTCATGCAGTGA
Done.