Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004657.1 Kokia drynarioides strain JFW-HI SEQ_118197, 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: 24592
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34


Found at i:4019 original size:33 final size:33

Alignment explanation


    Indices: 3977--4039  Score: 126
    Period size: 33  Copynumber: 1.9  Consensus size: 33

       3967 GAAAGAAGTA

                                             
       3977 AGAGTACAAAAGATGGAGATAAAAACTAAATCC
          1 AGAGTACAAAAGATGGAGATAAAAACTAAATCC

                                          
       4010 AGAGTACAAAAGATGGAGATAAAAACTAAA
          1 AGAGTACAAAAGATGGAGATAAAAACTAAA

       4040 CCCTAAAAAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  33   30  1.00

ACGTcount: A:0.57, C:0.10, G:0.19, T:0.14


Consensus pattern (33 bp):   
AGAGTACAAAAGATGGAGATAAAAACTAAATCC

Found at i:18201 original size:17 final size:16

Alignment explanation


    Indices: 18161--18201  Score: 55
    Period size: 17  Copynumber: 2.4  Consensus size: 16

      18151 TTGTCTTTCT

                            
      18161 TGCAATGTAAACGTCC
          1 TGCAATGTAAACGTCC

               *              
      18177 TCGTAATGTAAACGTTCC
          1 T-GCAATGTAAACG-TCC

                   
      18195 TGCAATG
          1 TGCAATG

      18202 CCACATAACT


Statistics
Matches: 21,  Mismatches: 2, Indels: 3
        0.81            0.08        0.12

Matches are distributed among these distances:
  16    1  0.05
  17   16  0.76
  18    4  0.19

ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29


Consensus pattern (16 bp):   
TGCAATGTAAACGTCC

Found at i:18295 original size:16 final size:16

Alignment explanation


    Indices: 18274--18307  Score: 59
    Period size: 16  Copynumber: 2.1  Consensus size: 16

      18264 CTATGCATGC

                  *         
      18274 AAAATATAAAAGACAT
          1 AAAATACAAAAGACAT

                            
      18290 AAAATACAAAAGACAT
          1 AAAATACAAAAGACAT

              
      18306 AA
          1 AA

      18308 TAGTGAACTG


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15


Consensus pattern (16 bp):   
AAAATACAAAAGACAT
Done.