Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004869.1 Kokia drynarioides strain JFW-HI SEQ_118539, 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: 1693
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37

Warning! 9 characters in sequence are not A, C, G, or T


Found at i:1296 original size:17 final size:17

Alignment explanation


    Indices: 1274--1347  Score: 85
    Period size: 17  Copynumber: 4.2  Consensus size: 17

       1264 AAATTGATTC

                         *   
       1274 AAATTTATTTTAATTTT
          1 AAATTTATTTTAAATTT

                               
       1291 AAATTTATCTTTTAAATTT
          1 AAATTTA--TTTTAAATTT

                  **         
       1310 AAATTTGCTTTAAATTT
          1 AAATTTATTTTAAATTT

                   *  *      
       1327 AAATTTAATTAAAATTT
          1 AAATTTATTTTAAATTT

                
       1344 AAAT
          1 AAAT

       1348 GGATTTAAAA


Statistics
Matches: 49,  Mismatches: 6, Indels: 4
        0.83            0.10        0.07

Matches are distributed among these distances:
  17   34  0.69
  19   15  0.31

ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54


Consensus pattern (17 bp):   
AAATTTATTTTAAATTT

Found at i:1312 original size:6 final size:6

Alignment explanation


    Indices: 1282--1347  Score: 55
    Period size: 6  Copynumber: 11.2  Consensus size: 6

       1272 TCAAATTTAT

                 *             **                   **              
       1282 TTTAAT TTTAAA TTTATCT TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA
          1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA

                     *            
       1330 TTT-AA TTAAAA TTTAAA T
          1 TTTAAA TTTAAA TTTAAA T

       1348 GGATTTAAAA


Statistics
Matches: 46,  Mismatches: 11, Indels: 6
        0.73            0.17        0.10

Matches are distributed among these distances:
   5    7  0.15
   6   35  0.76
   7    4  0.09

ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55


Consensus pattern (6 bp):   
TTTAAA
Done.