Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004373.1 Kokia drynarioides strain JFW-HI SEQ_117730, 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, 801

Length: 1336
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34


Found at i:64 original size:18 final size:16

Alignment explanation


    Indices: 37--77  Score: 57
    Period size: 16  Copynumber: 2.5  Consensus size: 16

         27 AATCACCTAT

                             
         37 AAAA-AAAAGAATAGAA
          1 AAAAGAAAAGAAT-GAA

                             
         53 AAATAGAAAAGAATGAA
          1 AAA-AGAAAAGAATGAA

                    
         70 AAAAGAAA
          1 AAAAGAAA

         78 TAATTTGCTG


Statistics
Matches: 23,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  16    8  0.35
  17    7  0.30
  18    8  0.35

ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07


Consensus pattern (16 bp):   
AAAAGAAAAGAATGAA

Found at i:480 original size:79 final size:79

Alignment explanation


    Indices: 392--553  Score: 279
    Period size: 79  Copynumber: 2.1  Consensus size: 79

        382 TTGTAGTATA

                             *                                *              
        392 TTTAGCATGCATAATAGGCATTTCATACTTAGTATTTATATTTTCTAACTTATTGTTGTTTAGCT
          1 TTTAGCATGCATAATAGACATTTCATACTTAGTATTTATATTTTCTAACTCATTGTTGTTTAGCT

                  *       
        457 TAAATTTTTCTTAT
         66 TAAATTCTTCTTAT

                                                                         *   
        471 TTTAGCATGCATAATAGACATTTCATACTTAGTATTTATATTTTCTAACTCATTGTTGTTTGGCT
          1 TTTAGCATGCATAATAGACATTTCATACTTAGTATTTATATTTTCTAACTCATTGTTGTTTAGCT

                     *    
        536 TAAATTCTTGTTAT
         66 TAAATTCTTCTTAT

                
        550 TTTA
          1 TTTA

        554 TCTCTTTTGT


Statistics
Matches: 78,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  79   78  1.00

ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51


Consensus pattern (79 bp):   
TTTAGCATGCATAATAGACATTTCATACTTAGTATTTATATTTTCTAACTCATTGTTGTTTAGCT
TAAATTCTTCTTAT
Done.