Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006362.1 Kokia drynarioides strain JFW-HI SEQ_120938, 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: 23287
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37

Warning! 3 characters in sequence are not A, C, G, or T


Found at i:3367 original size:2 final size:2

Alignment explanation


    Indices: 3360--3400  Score: 82
    Period size: 2  Copynumber: 20.5  Consensus size: 2

       3350 ACCAAGTGAT

                                                                         
       3360 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
          1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T

       3401 ATCTTATATG


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   39  1.00

ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51


Consensus pattern (2 bp):   
TC

Found at i:4143 original size:2 final size:2

Alignment explanation


    Indices: 4136--4174  Score: 51
    Period size: 2  Copynumber: 19.5  Consensus size: 2

       4126 TTATCATCTT

                                  *                   *     *         
       4136 TC TC TC TC TC TC TC TT TC TC TC TC TC TC GC TC GC TC TC T
          1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T

       4175 GTCTGTCTTT


Statistics
Matches: 31,  Mismatches: 6, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.00, C:0.46, G:0.05, T:0.49


Consensus pattern (2 bp):   
TC

Found at i:4153 original size:16 final size:16

Alignment explanation


    Indices: 4132--4186  Score: 65
    Period size: 16  Copynumber: 3.4  Consensus size: 16

       4122 GGACTTATCA

                            
       4132 TCTTTCTCTCTCTCTC
          1 TCTTTCTCTCTCTCTC

                            
       4148 TCTTTCTCTCTCTCTC
          1 TCTTTCTCTCTCTCTC

            *  **      *   *
       4164 GCTCGCTCTCTGTCTG
          1 TCTTTCTCTCTCTCTC

                   
       4180 TCTTTCT
          1 TCTTTCT

       4187 ATTTGTTTAA


Statistics
Matches: 31,  Mismatches: 8, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  16   31  1.00

ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53


Consensus pattern (16 bp):   
TCTTTCTCTCTCTCTC

Found at i:21129 original size:2 final size:2

Alignment explanation


    Indices: 21118--21158  Score: 75
    Period size: 2  Copynumber: 21.0  Consensus size: 2

      21108 TTTAACATAG

                                                                          
      21118 AT AT -T AT 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 AT AT AT AT

      21159 GGATAAGATG


Statistics
Matches: 38,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
   1    1  0.03
   2   37  0.97

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
AT

Done.