Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01015061.1 Kokia drynarioides strain JFW-HI SEQ_130105, 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: 399537
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33

Warning! 280 characters in sequence are not A, C, G, or T


File 2 of 2

Found at i:394303 original size:17 final size:19

Alignment explanation


    Indices: 394283--394319  Score: 51
    Period size: 18  Copynumber: 2.1  Consensus size: 19

     394273 ATAATATAAA

                               
     394283 AATTT-AAAACATA-TTTT
          1 AATTTCAAAACATACTTTT

                      *        
     394300 AATTTCAAAATATACTTTT
          1 AATTTCAAAACATACTTTT

             
     394319 A
          1 A

     394320 TATATATATG


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  17    5  0.29
  18    7  0.41
  19    5  0.29

ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46


Consensus pattern (19 bp):   
AATTTCAAAACATACTTTT

Found at i:394665 original size:17 final size:17

Alignment explanation


    Indices: 394643--394686  Score: 88
    Period size: 17  Copynumber: 2.6  Consensus size: 17

     394633 AATTGATAAA

                             
     394643 TGAACTTAAATCGAGCT
          1 TGAACTTAAATCGAGCT

                             
     394660 TGAACTTAAATCGAGCT
          1 TGAACTTAAATCGAGCT

                      
     394677 TGAACTTAAA
          1 TGAACTTAAA

     394687 AATAATTATT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   27  1.00

ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30


Consensus pattern (17 bp):   
TGAACTTAAATCGAGCT

Done.