Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003433.1 Kokia drynarioides strain JFW-HI SEQ_116210, 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: 13825
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36


Found at i:31 original size:15 final size:15

Alignment explanation


    Indices: 11--41  Score: 62
    Period size: 15  Copynumber: 2.1  Consensus size: 15

          1 TTATTGCTTT

                           
         11 TTTATTATATTTTGG
          1 TTTATTATATTTTGG

                           
         26 TTTATTATATTTTGG
          1 TTTATTATATTTTGG

             
         41 T
          1 T

         42 ATTTACTAGA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68


Consensus pattern (15 bp):   
TTTATTATATTTTGG

Found at i:7312 original size:70 final size:69

Alignment explanation


    Indices: 7176--7320  Score: 209
    Period size: 70  Copynumber: 2.1  Consensus size: 69

       7166 ATAAAATCTA

                 *       *                                                   
       7176 ATTTTTAATAAAATTCATGATTCCAAATATATTATTATTCTCTATATTTTTTAATAAAAAAATTA
          1 ATTTTCAATAAAACTCATGATTCCAAATATATTATTATTCTCTATATTTTTTAATAAAAAAATTA

              * 
       7241 TTTT
         66 TTGT

                             *      *                             *      **  
       7245 AGTTTTCAATAAAACTCGTGATTCTAAATATATTATTATTCTCTATATTTTTTACTAAAAATTTT
          1 A-TTTTCAATAAAACTCATGATTCCAAATATATTATTATTCTCTATATTTTTTAATAAAAAAATT

                 
       7310 ATTGT
         65 ATTGT

                  
       7315 ATTTTC
          1 ATTTTC

       7321 TCATGCACTT


Statistics
Matches: 67,  Mismatches: 8, Indels: 2
        0.87            0.10        0.03

Matches are distributed among these distances:
  69    6  0.09
  70   61  0.91

ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51


Consensus pattern (69 bp):   
ATTTTCAATAAAACTCATGATTCCAAATATATTATTATTCTCTATATTTTTTAATAAAAAAATTA
TTGT

Found at i:13279 original size:68 final size:68

Alignment explanation


    Indices: 13170--13304  Score: 243
    Period size: 68  Copynumber: 2.0  Consensus size: 68

      13160 CATAATTTTT

                                *                     *           *          
      13170 AAATTGAATTATTTTCGTAATTAATAAAAAATATGGATTACTTTTATAAAAAGCTTTTAACTTTA
          1 AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA

               
      13235 AAA
         66 AAA

                                                                             
      13238 AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA
          1 AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA

              
      13303 AA
         66 AA

      13305 TGGCTAATCA


Statistics
Matches: 64,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  68   64  1.00

ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39


Consensus pattern (68 bp):   
AAATTGAATTATTTTCGTAACTAATAAAAAATATGGATTACTGTTATAAAAAGCCTTTAACTTTA
AAA
Done.