Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012376.1 Kokia drynarioides strain JFW-HI SEQ_127380, 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, 805

Length: 1343
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36


Found at i:381 original size:23 final size:23

Alignment explanation


    Indices: 351--460  Score: 95
    Period size: 23  Copynumber: 4.8  Consensus size: 23

        341 GCTGGGGAAA

                                   
        351 CAGTAAGCACACACAGTGC-AAT
          1 CAGTAAGCACACACAGTGCAAAT

                              *   * 
        373 CCAGTAAGCACACACAGTTC-ATT
          1 -CAGTAAGCACACACAGTGCAAAT

                 *  *    *  *      
        396 CAGTAGGCGCACATAGCGCAAAT
          1 CAGTAAGCACACACAGTGCAAAT

                                      
        419 CAGT-AG-ACACACGAAGTGCGAAA-
          1 CAGTAAGCACACAC--AGTGC-AAAT

                               
        442 CAGTAAGCACACACAGTGC
          1 CAGTAAGCACACACAGTGC

        461 TGAACAGTAA


Statistics
Matches: 69,  Mismatches: 12, Indels: 12
        0.74            0.13        0.13

Matches are distributed among these distances:
  21    4  0.06
  22   15  0.22
  23   39  0.57
  24    5  0.07
  25    6  0.09

ACGTcount: A:0.38, C:0.27, G:0.21, T:0.14


Consensus pattern (23 bp):   
CAGTAAGCACACACAGTGCAAAT

Found at i:466 original size:23 final size:22

Alignment explanation


    Indices: 323--470  Score: 81
    Period size: 23  Copynumber: 6.4  Consensus size: 22

        313 CGAAGTACTT

                                      
        323 AACAGTAAGCACACA-AGTGCTGGGG
          1 AACAGTAAGCACACACAGTGC----G

                                   
        348 AAACAGTAAGCACACACAGTGC-
          1 -AACAGTAAGCACACACAGTGCG

                                 *  
        370 AATCCAGTAAGCACACACAGTTC-
          1 AA--CAGTAAGCACACACAGTGCG

              *     *  *    *  *  *
        393 ATTCAGTAGGCGCACATAGCGCA
          1 A-ACAGTAAGCACACACAGTGCG

                                     
        416 AATCAGT-AG-ACACACGAAGTGCG
          1 AA-CAGTAAGCACACAC--AGTGCG

                                    
        439 AAACAGTAAGCACACACAGTGCTG
          1 -AACAGTAAGCACACACAGTGC-G

                    
        463 AACAGTAA
          1 AACAGTAA

        471 ACGCGCTAGC


Statistics
Matches: 97,  Mismatches: 13, Indels: 27
        0.71            0.09        0.20

Matches are distributed among these distances:
  21    6  0.06
  22   15  0.15
  23   45  0.46
  24    5  0.05
  25    6  0.06
  26   15  0.15
  27    5  0.05

ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14


Consensus pattern (22 bp):   
AACAGTAAGCACACACAGTGCG
Done.