Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000802.1 Kokia drynarioides strain JFW-HI SEQ_111875, 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, 922

Length: 1538
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35


Found at i:161 original size:71 final size:70

Alignment explanation


    Indices: 1--191  Score: 209
    Period size: 71  Copynumber: 2.8  Consensus size: 70

                                       *     *                  *  *  *  *   
          1 GAAACAGTAAGCACACACAGTGC-AATCCAGTAGGCACACAC--AGTGC-AATCAGTAGGCGCAC
          1 GAAACAGTAAGCACACA-AGTGCGAA-ACAGTAAGCACACACGAAGTGCGAAACAATAAGCACAC

                   
         62 ATAGTGC
         64 ATAGTGC

                      *                                                      
         69 -AAATCAGTAGGCACACAAAGTGCGAAACAGTAAGCACACACGAAGTGCGAAACAATAAGCACAC
          1 GAAA-CAGTAAGCACAC-AAGTGCGAAACAGTAAGCACACACGAAGTGCGAAACAATAAGCACAC

                    
        133 GA-AGTGC
         64 -ATAGTGC

                                                                  
        140 GAAACAGTAAGCACACGAAGTGCGAAACAGTAAG--CACACGAAGTGCGAAACA
          1 GAAACAGTAAGCACAC-AAGTGCGAAACAGTAAGCACACACGAAGTGCGAAACA

        192 GTTAGCGCGC


Statistics
Matches: 106,  Mismatches: 9, Indels: 15
        0.82            0.07        0.12

Matches are distributed among these distances:
  67    3  0.03
  68   29  0.27
  69   21  0.20
  70    5  0.05
  71   44  0.42
  72    4  0.04

ACGTcount: A:0.42, C:0.24, G:0.24, T:0.10


Consensus pattern (70 bp):   
GAAACAGTAAGCACACAAGTGCGAAACAGTAAGCACACACGAAGTGCGAAACAATAAGCACACAT
AGTGC

Found at i:179 original size:23 final size:23

Alignment explanation


    Indices: 1--193  Score: 209
    Period size: 23  Copynumber: 8.3  Consensus size: 23

                                    
          1 GAAACAGTAAGCACAC-ACAGTGC
          1 GAAACAGTAAGCACACGA-AGTGC

                *     *              
         24 -AATCCAGTAGGCACAC-ACAGTGC
          1 GAA-ACAGTAAGCACACGA-AGTGC

               *     *  *           
         47 -AATCAGTAGGCGCAC-ATAGTGC
          1 GAAACAGTAAGCACACGA-AGTGC

                      *      *      
         69 -AAATCAGTAGGCACACAAAGTGC
          1 GAAA-CAGTAAGCACACGAAGTGC

                                     
         92 GAAACAGTAAGCACACACGAAGTGC
          1 GAAACAGTAAG--CACACGAAGTGC

                  *                
        117 GAAACAATAAGCACACGAAGTGC
          1 GAAACAGTAAGCACACGAAGTGC

                                   
        140 GAAACAGTAAGCACACGAAGTGC
          1 GAAACAGTAAGCACACGAAGTGC

                                   
        163 GAAACAGTAAGCACACGAAGTGC
          1 GAAACAGTAAGCACACGAAGTGC

                    
        186 GAAACAGT
          1 GAAACAGT

        194 TAGCGCGCTA


Statistics
Matches: 153,  Mismatches: 11, Indels: 12
        0.87            0.06        0.07

Matches are distributed among these distances:
  22   21  0.14
  23  107  0.70
  24    4  0.03
  25   21  0.14

ACGTcount: A:0.42, C:0.23, G:0.24, T:0.11


Consensus pattern (23 bp):   
GAAACAGTAAGCACACGAAGTGC
Done.