Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014340.1 Kokia drynarioides strain JFW-HI SEQ_129377, 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: 21974
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35

Warning! 4 characters in sequence are not A, C, G, or T


Found at i:1690 original size:18 final size:19

Alignment explanation


    Indices: 1664--1703  Score: 55
    Period size: 18  Copynumber: 2.2  Consensus size: 19

       1654 ATCACCCATC

                *              
       1664 TTATCAAATAAAAAATT-A
          1 TTATAAAATAAAAAATTGA

                       *       
       1682 TTATAAAATAATAAATTGA
          1 TTATAAAATAAAAAATTGA

               
       1701 TTA
          1 TTA

       1704 ATTTTAAAAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  18   15  0.79
  19    4  0.21

ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38


Consensus pattern (19 bp):   
TTATAAAATAAAAAATTGA

Found at i:5404 original size:2 final size:2

Alignment explanation


    Indices: 5397--5422  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       5387 GCTCCTTTCA

                                                  
       5397 CT CT CT CT CT CT CT CT CT CT CT CT CT
          1 CT CT CT CT CT CT CT CT CT CT CT CT CT

       5423 ACAATTTGCA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50


Consensus pattern (2 bp):   
CT

Found at i:11931 original size:21 final size:21

Alignment explanation


    Indices: 11892--11950  Score: 66
    Period size: 23  Copynumber: 2.7  Consensus size: 21

      11882 TTCTTTGAAC

                     *             
      11892 TTTCCTTTTTTTCTCTCTT-TAT
          1 TTTCC-TTTCTTCTCT-TTCTAT

                                   
      11914 TTTCCATTCTCTTCTCTTTCTAT
          1 TTTCC-TT-TCTTCTCTTTCTAT

                          
      11937 TTTCCTTTCTTCTC
          1 TTTCCTTTCTTCTC

      11951 CATTTCTTTT


Statistics
Matches: 33,  Mismatches: 2, Indels: 5
        0.82            0.05        0.12

Matches are distributed among these distances:
  21    7  0.21
  22   11  0.33
  23   15  0.45

ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66


Consensus pattern (21 bp):   
TTTCCTTTCTTCTCTTTCTAT

Found at i:11957 original size:23 final size:23

Alignment explanation


    Indices: 11902--11950  Score: 68
    Period size: 23  Copynumber: 2.2  Consensus size: 23

      11892 TTTCCTTTTT

                                    
      11902 TTCTCTCTT-TATTTTCCATTCTC
          1 TTCTCT-TTCTATTTTCCATTCTC

                                   
      11925 TTCTCTTTCTATTTTCC-TT-TC
          1 TTCTCTTTCTATTTTCCATTCTC

                 
      11946 TTCTC
          1 TTCTC

      11951 CATTTCTTTT


Statistics
Matches: 25,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  21    7  0.28
  22    4  0.16
  23   14  0.56

ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63


Consensus pattern (23 bp):   
TTCTCTTTCTATTTTCCATTCTC
Done.