Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013061.1 Kokia drynarioides strain JFW-HI SEQ_128079, 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: 10696
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29


Found at i:2438 original size:23 final size:24

Alignment explanation


    Indices: 2407--2480  Score: 66
    Period size: 23  Copynumber: 3.2  Consensus size: 24

       2397 TTGAAAAAAT

                *                   
       2407 GAAAGGAAAAATGAGAGAAA-AGA
          1 GAAAAGAAAAATGAGAGAAAGAGA

             *        *   *         
       2430 GCAAAG-AAAGTGAAAGAAAGAGA
          1 GAAAAGAAAAATGAGAGAAAGAGA

                                *    
       2453 GAAAAGAAAAA-GATGAGAAGGA-A
          1 GAAAAGAAAAATGA-GAGAAAGAGA

                 
       2476 GAAAA
          1 GAAAA

       2481 AGAGATAGAA


Statistics
Matches: 40,  Mismatches: 8, Indels: 6
        0.74            0.15        0.11

Matches are distributed among these distances:
  22   11  0.28
  23   20  0.50
  24    9  0.22

ACGTcount: A:0.65, C:0.01, G:0.30, T:0.04


Consensus pattern (24 bp):   
GAAAAGAAAAATGAGAGAAAGAGA

Found at i:5651 original size:39 final size:39

Alignment explanation


    Indices: 5605--5703  Score: 162
    Period size: 39  Copynumber: 2.5  Consensus size: 39

       5595 TTAAATAGGG

                                                   
       5605 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTAT
          1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTAT

                           *                     * 
       5644 TTTTAATGTGTCTTATTTTGATACATATTTAATAGTTGT
          1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTAT

                  *      *       
       5683 TTTTAAGGTGTCTAAGTTTGA
          1 TTTTAATGTGTCTTAGTTTGA

       5704 GACAAATTAA


Statistics
Matches: 55,  Mismatches: 5, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  39   55  1.00

ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54


Consensus pattern (39 bp):   
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTAT
Done.