Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012427.1 Kokia drynarioides strain JFW-HI SEQ_127431, 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: 8770
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32

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


Found at i:8318 original size:15 final size:17

Alignment explanation


    Indices: 8291--8344  Score: 58
    Period size: 15  Copynumber: 3.2  Consensus size: 17

       8281 AAAATAAAAT

                  *      *   
       8291 TTAATTAAAAGAAGAAA
          1 TTAATTTAAAGAACAAA

                             
       8308 -T-ATTTAAAGAACAAA
          1 TTAATTTAAAGAACAAA

                          *   
       8323 TTAATTTAAAGTAATAAA
          1 TTAATTTAAAG-AACAAA

                
       8341 TTAA
          1 TTAA

       8345 ATTTTAAAAT


Statistics
Matches: 31,  Mismatches: 3, Indels: 5
        0.79            0.08        0.13

Matches are distributed among these distances:
  15   12  0.39
  16    2  0.06
  17    8  0.26
  18    9  0.29

ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31


Consensus pattern (17 bp):   
TTAATTTAAAGAACAAA

Found at i:8343 original size:18 final size:17

Alignment explanation


    Indices: 8255--8432  Score: 80
    Period size: 19  Copynumber: 9.8  Consensus size: 17

       8245 TTAAAATATC

                               
       8255 AATTTAAAGGAATAAATTT
          1 AATTTAAA-GAATAAA-TT

              *                 
       8274 AAATTACAA-AATAAAATTT
          1 AATTTA-AAGAAT-AAA-TT

                *      *     
       8293 AATTAAAAGAAGAAA-T
          1 AATTTAAAGAATAAATT

                       *     
       8309 -ATTTAAAGAACAAATT
          1 AATTTAAAGAATAAATT

                              
       8325 AATTTAAAGTAATAAATT
          1 AATTTAAAG-AATAAATT

                  *             
       8343 AAATTTTAA-AATATAATAT
          1 -AATTTAAAGAATA-AAT-T

                     *         *
       8362 AATTTAAATTAACTAAGA-C
          1 AATTTAAA-GAA-TAA-ATT

                                 
       8381 ATATTTAAAGAATAATAAATT
          1 A-ATTTAAAG---AATAAATT

             *                 
       8402 ATTTTAAAGCAATAAACTT
          1 AATTTAAAG-AATAAA-TT

                         
       8421 AATTTAAA-AATA
          1 AATTTAAAGAATA

       8433 GAAGATATTA


Statistics
Matches: 125,  Mismatches: 15, Indels: 40
        0.69            0.08        0.22

Matches are distributed among these distances:
  15   12  0.10
  16    2  0.02
  17   16  0.13
  18   31  0.25
  19   35  0.28
  20   20  0.16
  21    7  0.06
  22    2  0.02

ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34


Consensus pattern (17 bp):   
AATTTAAAGAATAAATT

Found at i:8365 original size:37 final size:35

Alignment explanation


    Indices: 8248--8369  Score: 92
    Period size: 37  Copynumber: 3.4  Consensus size: 35

       8238 AATTATATTA

                                                   
       8248 AAATATCAATTTAAAGGAATAAATTTAAA-TTACAAAAT
          1 AAATAT-AATTTAAA-GAATAAA-TTAAATTTA-AAAAT

                 *     *      *                 *
       8286 AAAATTTAATTAAAAGAAGAAA-T--ATTTAAAGAAC
          1 -AAATATAATTTAAAGAATAAATTAAATTTAAA-AAT

                                          *     
       8320 AAAT-TAATTTAAAGTAATAAATTAAATTTTAAAAT
          1 AAATATAATTTAAAG-AATAAATTAAATTTAAAAAT

                           
       8355 ATAATATAATTTAAA
          1 A-AATATAATTTAAA

       8370 TTAACTAAGA


Statistics
Matches: 67,  Mismatches: 8, Indels: 18
        0.72            0.09        0.19

Matches are distributed among these distances:
  32    9  0.13
  33   12  0.18
  34    6  0.09
  35    4  0.06
  36    9  0.13
  37   15  0.22
  38    7  0.10
  39    5  0.07

ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34


Consensus pattern (35 bp):   
AAATATAATTTAAAGAATAAATTAAATTTAAAAAT
Done.