Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012361.1 Kokia drynarioides strain JFW-HI SEQ_127365, 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: 10255
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33


Found at i:283 original size:21 final size:21

Alignment explanation


    Indices: 212--285  Score: 87
    Period size: 21  Copynumber: 3.6  Consensus size: 21

        202 TGGTACAGTT

                     *      *   *
        212 TTCTA-CGACACAAGTGTCAG
          1 TTCTACCGATACAAGTCTCAA

                     *          *
        232 TTCTACCGAAACAAGTCTCAC
          1 TTCTACCGATACAAGTCTCAA

                              *  
        253 TTCTACCGATACAAGTCTTAA
          1 TTCTACCGATACAAGTCTCAA

                        
        274 TTCTACCGATAC
          1 TTCTACCGATAC

        286 CAAAAACTTC


Statistics
Matches: 47,  Mismatches: 6, Indels: 1
        0.87            0.11        0.02

Matches are distributed among these distances:
  20    5  0.11
  21   42  0.89

ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28


Consensus pattern (21 bp):   
TTCTACCGATACAAGTCTCAA

Found at i:982 original size:36 final size:36

Alignment explanation


    Indices: 933--1029  Score: 149
    Period size: 36  Copynumber: 2.7  Consensus size: 36

        923 TTATTCATTG

                    *      *                    
        933 TACTCCCTGTTGACCCAAAGGTCATAATGCTCGTTT
          1 TACTCCCTATTGACCAAAAGGTCATAATGCTCGTTT

                           *               *    
        969 TACTCCCTATTGACCTAAAGGTCATAATGCTTGTTT
          1 TACTCCCTATTGACCAAAAGGTCATAATGCTCGTTT

                         *           
       1005 TACTCCCTATTGATCAAAAGGTCAT
          1 TACTCCCTATTGACCAAAAGGTCAT

       1030 GCTTGTTACC


Statistics
Matches: 56,  Mismatches: 5, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  36   56  1.00

ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35


Consensus pattern (36 bp):   
TACTCCCTATTGACCAAAAGGTCATAATGCTCGTTT

Found at i:9974 original size:21 final size:21

Alignment explanation


    Indices: 9950--9993  Score: 61
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       9940 TTCAATCGAA

                         *       
       9950 ACAAGTCTCACTTTTACCGAT
          1 ACAAGTCTCACTTCTACCGAT

                  * *            
       9971 ACAAGTTTTACTTCTACCGAT
          1 ACAAGTCTCACTTCTACCGAT

              
       9992 AC
          1 AC

       9994 CAAAAACTTC


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34


Consensus pattern (21 bp):   
ACAAGTCTCACTTCTACCGAT
Done.