Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007860.1 Kokia drynarioides strain JFW-HI SEQ_122499, 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, 634

Length: 1058
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36


Found at i:100 original size:60 final size:60

Alignment explanation


    Indices: 1--128  Score: 168
    Period size: 63  Copynumber: 2.1  Consensus size: 60

                                                      *                 
          1 TTTTTTTTACCCAATTTGATACTTAAACTTGACA-CTTTTTCTTAATTTGATACCTAAAC
          1 TTTTTTTTACCCAATTTGATACTTAAACTTGACATCTTTTTCCTAATTTGATACCTAAAC

                               *     *      *     *                      * 
         60 TTTTTTTTAACCCAATTTGGTACTTGAACTTGGCATTTTTTTTTCCTAATTTGATACCTAAGC
          1 TTTTTTTT-ACCCAATTTGATACTTAAACTTGACA--TCTTTTTCCTAATTTGATACCTAAAC

                  
        123 TTTTTT
          1 TTTTTT

        129 AGATTCAATT


Statistics
Matches: 59,  Mismatches: 6, Indels: 4
        0.86            0.09        0.06

Matches are distributed among these distances:
  59    8  0.14
  60   23  0.39
  63   28  0.47

ACGTcount: A:0.24, C:0.17, G:0.08, T:0.51


Consensus pattern (60 bp):   
TTTTTTTTACCCAATTTGATACTTAAACTTGACATCTTTTTCCTAATTTGATACCTAAAC

Found at i:404 original size:31 final size:31

Alignment explanation


    Indices: 351--424  Score: 78
    Period size: 31  Copynumber: 2.4  Consensus size: 31

        341 CCTAAAAAAG

                        **                  
        351 TTTAAGTACCAACTTAAAAAAAAG-AGTCAAA
          1 TTTAAGTACCAAAATAAAAAAAAGTA-TCAAA

                            **            *
        382 TTTAAGTACCAAAATATGAAAAAGTATCAAG
          1 TTTAAGTACCAAAATAAAAAAAAGTATCAAA

                 *      
        413 TTTAATTACCAA
          1 TTTAAGTACCAA

        425 TTAGACAAAA


Statistics
Matches: 36,  Mismatches: 6, Indels: 2
        0.82            0.14        0.05

Matches are distributed among these distances:
  31   35  0.97
  32    1  0.03

ACGTcount: A:0.51, C:0.12, G:0.09, T:0.27


Consensus pattern (31 bp):   
TTTAAGTACCAAAATAAAAAAAAGTATCAAA
Done.