Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011106.1 Kokia drynarioides strain JFW-HI SEQ_126079, 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: 9863
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:5222 original size:37 final size:37

Alignment explanation


    Indices: 5181--5302  Score: 90
    Period size: 37  Copynumber: 3.2  Consensus size: 37

       5171 ATTATCGTAT

                                                 
       5181 TAACTCGAGCTATGGATTCCCTTATTAGATTTGACTC
          1 TAACTCGAGCTATGGATTCCCTTATTAGATTTGACTC

                           **     *        **            
       5218 TAACTCG-G-TAGATTTATGTCGCTCTATTTCTATTATCGTA-T-
          1 TAACTCGAGCT--ATGGAT-TCCCT-TA-TTAGATT-T-G-ACTC

                              *                  
       5259 TAACTCGAGCTATGGATTTCCTTATTAGATTTGACTC
          1 TAACTCGAGCTATGGATTCCCTTATTAGATTTGACTC

                   
       5296 TAACTCG
          1 TAACTCG

       5303 GTAGATTTAT


Statistics
Matches: 62,  Mismatches: 11, Indels: 24
        0.64            0.11        0.25

Matches are distributed among these distances:
  35    2  0.03
  36    3  0.05
  37   19  0.31
  38    9  0.15
  39    4  0.06
  40    8  0.13
  41   12  0.19
  42    3  0.05
  43    2  0.03

ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41


Consensus pattern (37 bp):   
TAACTCGAGCTATGGATTCCCTTATTAGATTTGACTC

Found at i:5298 original size:78 final size:78

Alignment explanation


    Indices: 5169--5327  Score: 300
    Period size: 78  Copynumber: 2.0  Consensus size: 78

       5159 ATTAAAACTC

                                                                             
       5169 CTATTATCGTATTAACTCGAGCTATGGATTCCCTTATTAGATTTGACTCTAACTCGGTAGATTTA
          1 CTATTATCGTATTAACTCGAGCTATGGATTCCCTTATTAGATTTGACTCTAACTCGGTAGATTTA

             *           
       5234 TGTCGCTCTATTT
         66 TATCGCTCTATTT

                                          *                                  
       5247 CTATTATCGTATTAACTCGAGCTATGGATTTCCTTATTAGATTTGACTCTAACTCGGTAGATTTA
          1 CTATTATCGTATTAACTCGAGCTATGGATTCCCTTATTAGATTTGACTCTAACTCGGTAGATTTA

                         
       5312 TATCGCTCTATTT
         66 TATCGCTCTATTT

               
       5325 CTA
          1 CTA

       5328 ATATTGCATG


Statistics
Matches: 79,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  78   79  1.00

ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43


Consensus pattern (78 bp):   
CTATTATCGTATTAACTCGAGCTATGGATTCCCTTATTAGATTTGACTCTAACTCGGTAGATTTA
TATCGCTCTATTT
Done.