Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014641.1 Kokia drynarioides strain JFW-HI SEQ_129680, 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: 41163
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:13007 original size:68 final size:68

Alignment explanation


    Indices: 12898--13035  Score: 258
    Period size: 68  Copynumber: 2.0  Consensus size: 68

      12888 AATCTACACT

                                                                             
      12898 AATCACAAAAGCCTCAAGTACCTGTTAACTCAGAAGGAATTGAACCTAAGACAATGAAGATAGGT
          1 AATCACAAAAGCCTCAAGTACCTGTTAACTCAGAAGGAATTGAACCTAAGACAATGAAGATAGGT

               
      12963 ATA
         66 ATA

                       *                                         *           
      12966 AATCACAAAAGGCTCAAGTACCTGTTAACTCAGAAGGAATTGAACCTAAGACAGTGAAGATAGGT
          1 AATCACAAAAGCCTCAAGTACCTGTTAACTCAGAAGGAATTGAACCTAAGACAATGAAGATAGGT

               
      13031 ATA
         66 ATA

              
      13034 AA
          1 AA

      13036 AACTCAAGGA


Statistics
Matches: 68,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  68   68  1.00

ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20


Consensus pattern (68 bp):   
AATCACAAAAGCCTCAAGTACCTGTTAACTCAGAAGGAATTGAACCTAAGACAATGAAGATAGGT
ATA

Found at i:13869 original size:15 final size:15

Alignment explanation


    Indices: 13846--13880  Score: 52
    Period size: 15  Copynumber: 2.3  Consensus size: 15

      13836 AAAAAACATC

                *          
      13846 ATAAGTATTATTTAA
          1 ATAAATATTATTTAA

                           
      13861 ATAAATATTATTTAA
          1 ATAAATATTATTTAA

            *    
      13876 TTAAA
          1 ATAAA

      13881 GCAATAATCC


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  15   18  1.00

ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46


Consensus pattern (15 bp):   
ATAAATATTATTTAA

Found at i:21226 original size:23 final size:22

Alignment explanation


    Indices: 21194--21242  Score: 62
    Period size: 23  Copynumber: 2.2  Consensus size: 22

      21184 AAAGAATTAA

                       *         *
      21194 AATTAACCCAATTTAATTAATT
          1 AATTAACCCAAATTAATTAATG

                            *      
      21216 AATTCAACCCAAATTATTTAATG
          1 AATT-AACCCAAATTAATTAATG

                
      21239 AATT
          1 AATT

      21243 TAGAATGAAT


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  22    4  0.17
  23   19  0.83

ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39


Consensus pattern (22 bp):   
AATTAACCCAAATTAATTAATG
Done.