Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005282.1 Kokia drynarioides strain JFW-HI SEQ_119204, 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: 11037
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:426 original size:12 final size:14

Alignment explanation


    Indices: 411--442  Score: 50
    Period size: 12  Copynumber: 2.4  Consensus size: 14

        401 TTAATTTTTC

                          
        411 AATTTTT-TATT-T
          1 AATTTTTCTATTCT

                          
        423 AATTTTTCTATTCT
          1 AATTTTTCTATTCT

                  
        437 AATTTT
          1 AATTTT

        443 CTCTTTTGTT


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

Matches are distributed among these distances:
  12    7  0.39
  13    4  0.22
  14    7  0.39

ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69


Consensus pattern (14 bp):   
AATTTTTCTATTCT

Found at i:1796 original size:42 final size:42

Alignment explanation


    Indices: 1737--1823  Score: 129
    Period size: 42  Copynumber: 2.1  Consensus size: 42

       1727 TACAAAACAA

                        *         *   *             * 
       1737 TGAGACAACTTTTAAAAATCAGCAAGCATCAATTCATGGCCT
          1 TGAGACAACTTTGAAAAATCAGAAAGAATCAATTCATGGCAT

                   *                                  
       1779 TGAGACAGCTTTGAAAAATCAGAAAGAATCAATTCATGGCAT
          1 TGAGACAACTTTGAAAAATCAGAAAGAATCAATTCATGGCAT

               
       1821 TGA
          1 TGA

       1824 AAATTAAATT


Statistics
Matches: 40,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  42   40  1.00

ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25


Consensus pattern (42 bp):   
TGAGACAACTTTGAAAAATCAGAAAGAATCAATTCATGGCAT

Found at i:10207 original size:21 final size:22

Alignment explanation


    Indices: 10181--10222  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 22

      10171 AATCAAAAAG

                                  
      10181 AAAAGAAAAATGAGT-AGAAAC
          1 AAAAGAAAAATGAGTAAGAAAC

                   **            
      10202 AAAAGAATCATGAGTAAGAAA
          1 AAAAGAAAAATGAGTAAGAAA

      10223 ACATATAGTG


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  21   13  0.72
  22    5  0.28

ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12


Consensus pattern (22 bp):   
AAAAGAAAAATGAGTAAGAAAC
Done.