Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005714.1 Kokia drynarioides strain JFW-HI SEQ_119943, 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: 4179
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30


Found at i:591 original size:21 final size:21

Alignment explanation


    Indices: 565--608  Score: 70
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        555 CTCTCCTTCC

                        *    *   
        565 TCCTTGTGCTTCTTCTTTTTG
          1 TCCTTGTGCTTCCTCTTCTTG

                                 
        586 TCCTTGTGCTTCCTCTTCTTG
          1 TCCTTGTGCTTCCTCTTCTTG

              
        607 TC
          1 TC

        609 ATTCAAACCA


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.00, C:0.30, G:0.14, T:0.57


Consensus pattern (21 bp):   
TCCTTGTGCTTCCTCTTCTTG

Found at i:1626 original size:43 final size:43

Alignment explanation


    Indices: 1565--1652  Score: 176
    Period size: 43  Copynumber: 2.0  Consensus size: 43

       1555 CCCCATCTCT

                                                       
       1565 GGGTACAATCCCCCTTTGTTTACATAGCAGCATGATTAAAGAA
          1 GGGTACAATCCCCCTTTGTTTACATAGCAGCATGATTAAAGAA

                                                       
       1608 GGGTACAATCCCCCTTTGTTTACATAGCAGCATGATTAAAGAA
          1 GGGTACAATCCCCCTTTGTTTACATAGCAGCATGATTAAAGAA

              
       1651 GG
          1 GG

       1653 AAACAATAAT


Statistics
Matches: 45,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  43   45  1.00

ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27


Consensus pattern (43 bp):   
GGGTACAATCCCCCTTTGTTTACATAGCAGCATGATTAAAGAA

Found at i:3976 original size:84 final size:84

Alignment explanation


    Indices: 3835--4001  Score: 298
    Period size: 84  Copynumber: 2.0  Consensus size: 84

       3825 ACAATGTAGG

                                                                             
       3835 CCAATAGGATCCTGATTGTAAAACCTTTGCAACAATCCTTACACCGCCAAAATGGCCTCCATAGG
          1 CCAATAGGATCCTGATTGTAAAACCTTTGCAACAATCCTTACACCGCCAAAATGGCCTCCATAGG

                               
       3900 GAGCATCATGGCAATGTCC
         66 GAGCATCATGGCAATGTCC

                                         *  * *         *                    
       3919 CCAATAGGATCCTGATTGTAAAACCTTTGGAATAGTCCTTACACTGCCAAAATGGCCTCCATAGG
          1 CCAATAGGATCCTGATTGTAAAACCTTTGCAACAATCCTTACACCGCCAAAATGGCCTCCATAGG

                              
       3984 GAGCATCATGGCAATGTC
         66 GAGCATCATGGCAATGTC

       4002 TCAAGATAGA


Statistics
Matches: 79,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  84   79  1.00

ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24


Consensus pattern (84 bp):   
CCAATAGGATCCTGATTGTAAAACCTTTGCAACAATCCTTACACCGCCAAAATGGCCTCCATAGG
GAGCATCATGGCAATGTCC
Done.