Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001604.1 Kokia drynarioides strain JFW-HI SEQ_113230, 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, 817

Length: 1363
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35


Found at i:960 original size:6 final size:6

Alignment explanation


    Indices: 943--1032  Score: 67
    Period size: 6  Copynumber: 14.0  Consensus size: 6

        933 CTCAAACACA

                                                           *           
        943 CTTTTGT CTTTTT CTTTTT CTTTTT CTTTTT -TTTTCCT CAATTTT CTTTTT
          1 CTTTT-T CTTTTT CTTTTT CTTTTT CTTTTT CTTTT--T C-TTTTT CTTTTT

            *                      *                     
        994 TTTTTT CAATTTTT CTTTTCGA CTTTTT -TTTTT CTTTTT
          1 CTTTTT C--TTTTT CTTTT--T CTTTTT CTTTTT CTTTTT

       1033 TTTCTAAACA


Statistics
Matches: 68,  Mismatches: 6, Indels: 19
        0.73            0.06        0.20

Matches are distributed among these distances:
   5    9  0.13
   6   37  0.54
   7    8  0.12
   8   11  0.16
   9    3  0.04

ACGTcount: A:0.06, C:0.16, G:0.02, T:0.77


Consensus pattern (6 bp):   
CTTTTT

Found at i:973 original size:19 final size:19

Alignment explanation


    Indices: 944--1012  Score: 77
    Period size: 20  Copynumber: 3.5  Consensus size: 19

        934 TCAAACACAC

                        *       
        944 TTTTGTCTTTTTCTTTTTC-
          1 TTTT-TCTTTTTTTTTTTCA

                            *   
        963 TTTTTCTTTTTTTTTCCTCA
          1 TTTTTCTTTTTTTTT-TTCA

            *                   
        983 ATTTTCTTTTTTTTTTTCAA
          1 TTTTTCTTTTTTTTTTTC-A

                      
       1003 TTTTTCTTTT
          1 TTTTTCTTTT

       1013 CGACTTTTTT


Statistics
Matches: 42,  Mismatches: 5, Indels: 5
        0.81            0.10        0.10

Matches are distributed among these distances:
  18   10  0.24
  19    8  0.19
  20   24  0.57

ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78


Consensus pattern (19 bp):   
TTTTTCTTTTTTTTTTTCA

Done.