Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014836.1 Kokia drynarioides strain JFW-HI SEQ_129878, 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: 20417
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35

Warning! 200 characters in sequence are not A, C, G, or T


Found at i:19 original size:4 final size:4

Alignment explanation


    Indices: 11--39  Score: 58
    Period size: 4  Copynumber: 7.2  Consensus size: 4

          1 GGTGGACGGC

                                                
         11 GGAT GGAT GGAT GGAT GGAT GGAT GGAT G
          1 GGAT GGAT GGAT GGAT GGAT GGAT GGAT G

         40 ATTTTTCTAG


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   25  1.00

ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24


Consensus pattern (4 bp):   
GGAT

Found at i:2549 original size:16 final size:16

Alignment explanation


    Indices: 2513--2550  Score: 51
    Period size: 15  Copynumber: 2.4  Consensus size: 16

       2503 TAAAATTTCC

                            
       2513 TTTTTTAGGTTAATTT
          1 TTTTTTAGGTTAATTT

            *              *
       2529 GTTTTTA-GTTAATTA
          1 TTTTTTAGGTTAATTT

                   
       2544 TTTTTTA
          1 TTTTTTA

       2551 AATTTAAAAA


Statistics
Matches: 19,  Mismatches: 3, Indels: 1
        0.83            0.13        0.04

Matches are distributed among these distances:
  15   13  0.68
  16    6  0.32

ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68


Consensus pattern (16 bp):   
TTTTTTAGGTTAATTT

Found at i:10642 original size:5 final size:6

Alignment explanation


    Indices: 10624--10648  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

      10614 GTTCCTGAGC

                                         
      10624 AAGAAA AAGAAA AAGAAA AAGAAA A
          1 AAGAAA AAGAAA AAGAAA AAGAAA A

      10649 CAGAGGCAAG


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00


Consensus pattern (6 bp):   
AAGAAA

Found at i:11510 original size:2 final size:2

Alignment explanation


    Indices: 11503--11536  Score: 68
    Period size: 2  Copynumber: 17.0  Consensus size: 2

      11493 NNNNNNNNNN

                                                              
      11503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

      11537 TAGGTTAAAA


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   32  1.00

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


Consensus pattern (2 bp):   
AT

Done.