Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014822.1 Kokia drynarioides strain JFW-HI SEQ_129864, 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: 7357
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.32

Warning! 250 characters in sequence are not A, C, G, or T


Found at i:33 original size:14 final size:15

Alignment explanation


    Indices: 7--37  Score: 55
    Period size: 14  Copynumber: 2.1  Consensus size: 15

          1 GGTTCA

                           
          7 TCAACACATTTTTCT
          1 TCAACACATTTTTCT

                           
         22 TCAACA-ATTTTTCT
          1 TCAACACATTTTTCT

              
         36 TC
          1 TC

         38 CCATTTCTTG


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14   10  0.62
  15    6  0.38

ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48


Consensus pattern (15 bp):   
TCAACACATTTTTCT

Found at i:3018 original size:14 final size:15

Alignment explanation


    Indices: 2992--3022  Score: 55
    Period size: 14  Copynumber: 2.1  Consensus size: 15

       2982 TCCAGGTTCA

                           
       2992 TCAACACATTTTTCT
          1 TCAACACATTTTTCT

                           
       3007 TCAACA-ATTTTTCT
          1 TCAACACATTTTTCT

              
       3021 TC
          1 TC

       3023 CCATTTCTTG


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14   10  0.62
  15    6  0.38

ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48


Consensus pattern (15 bp):   
TCAACACATTTTTCT

Found at i:7236 original size:23 final size:23

Alignment explanation


    Indices: 7209--7253  Score: 81
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       7199 GCTGATCCAA

                                   
       7209 ACAGTCATGAAGAATGGAGAAAC
          1 ACAGTCATGAAGAATGGAGAAAC

                     *            
       7232 ACAGTCATGGAGAATGGAGAAA
          1 ACAGTCATGAAGAATGGAGAAA

       7254 TCTCAAAAAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  23   21  1.00

ACGTcount: A:0.47, C:0.11, G:0.29, T:0.13


Consensus pattern (23 bp):   
ACAGTCATGAAGAATGGAGAAAC

Found at i:7289 original size:29 final size:29

Alignment explanation


    Indices: 7244--7304  Score: 95
    Period size: 29  Copynumber: 2.1  Consensus size: 29

       7234 AGTCATGGAG

                *       *                
       7244 AATGGAGAAATCTCAAAAAATAAAAATCA
          1 AATGAAGAAATCCCAAAAAATAAAAATCA

                                       * 
       7273 AATGAAGAAATCCCAAAAAATAAAAATTA
          1 AATGAAGAAATCCCAAAAAATAAAAATCA

               
       7302 AAT
          1 AAT

       7305 ATAATGCTTG


Statistics
Matches: 29,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  29   29  1.00

ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18


Consensus pattern (29 bp):   
AATGAAGAAATCCCAAAAAATAAAAATCA
Done.