Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003153.1 Kokia drynarioides strain JFW-HI SEQ_115740, 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, 789

Length: 1316
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37


Found at i:333 original size:23 final size:22

Alignment explanation


    Indices: 296--396  Score: 91
    Period size: 23  Copynumber: 4.5  Consensus size: 22

        286 GCTGGGGAAA

                                  
        296 CAGTAGG--CACACAGTGCAAT
          1 CAGTAGGCACACACAGTGCAAT

                                   
        316 CCAGTAGGCACACACAGTGCAAT
          1 -CAGTAGGCACACACAGTGCAAT

              *     *    *  *      
        339 CAATAGGCGCACATAGCGCAAAT
          1 CAGTAGGCACACACAGTGC-AAT

                                   *
        362 CAGTAGGCACACGA-AGTGCGAAA
          1 CAGTAGGCACAC-ACAGTGC-AAT

                 *      
        385 CAGTAAGCACAC
          1 CAGTAGGCACAC

        397 GAAGTGCGAT


Statistics
Matches: 66,  Mismatches: 10, Indels: 6
        0.80            0.12        0.07

Matches are distributed among these distances:
  21    7  0.11
  22   15  0.23
  23   43  0.65
  24    1  0.02

ACGTcount: A:0.38, C:0.27, G:0.24, T:0.12


Consensus pattern (22 bp):   
CAGTAGGCACACACAGTGCAAT

Found at i:397 original size:23 final size:23

Alignment explanation


    Indices: 362--415  Score: 90
    Period size: 23  Copynumber: 2.3  Consensus size: 23

        352 TAGCGCAAAT

                 *                 
        362 CAGTAGGCACACGAAGTGCGAAA
          1 CAGTAAGCACACGAAGTGCGAAA

                                 * 
        385 CAGTAAGCACACGAAGTGCGATA
          1 CAGTAAGCACACGAAGTGCGAAA

                    
        408 CAGTAAGC
          1 CAGTAAGC

        416 GCGCTAGCGT


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  23   29  1.00

ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11


Consensus pattern (23 bp):   
CAGTAAGCACACGAAGTGCGAAA
Done.