Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003559.1 Kokia drynarioides strain JFW-HI SEQ_116420, 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: 2998
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40


Found at i:23 original size:14 final size:15

Alignment explanation


    Indices: 4--32  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

          1 GCC

                           
          4 TTTTG-AGAGAAAAA
          1 TTTTGAAGAGAAAAA

                           
         18 TTTTGAAGAGAAAAA
          1 TTTTGAAGAGAAAAA

         33 GGACACAAAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    5  0.36
  15    9  0.64

ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28


Consensus pattern (15 bp):   
TTTTGAAGAGAAAAA

Found at i:584 original size:21 final size:22

Alignment explanation


    Indices: 560--602  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        550 ATAATTGGCA

                      *           
        560 TTATTT-TAATTATTTTTTATT
          1 TTATTTGTAACTATTTTTTATT

                    *             
        581 TTATTTGTTACTATTTTTTATT
          1 TTATTTGTAACTATTTTTTATT

        603 ATTTACTATA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  21    6  0.32
  22   13  0.68

ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74


Consensus pattern (22 bp):   
TTATTTGTAACTATTTTTTATT

Found at i:601 original size:17 final size:17

Alignment explanation


    Indices: 579--632  Score: 58
    Period size: 17  Copynumber: 3.2  Consensus size: 17

        569 TTATTTTTTA

                             
        579 TTTTATTTGTTACTATT
          1 TTTTATTTGTTACTATT

                               
        596 TTTTATTAT-TTACTATAT
          1 TTTTATT-TGTTACTAT-T

              *   *          
        614 TTCTATATGTTA-TATT
          1 TTTTATTTGTTACTATT

               
        630 TTT
          1 TTT

        633 ATGCTATTAT


Statistics
Matches: 31,  Mismatches: 3, Indels: 7
        0.76            0.07        0.17

Matches are distributed among these distances:
  16    3  0.10
  17   18  0.58
  18   10  0.32

ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69


Consensus pattern (17 bp):   
TTTTATTTGTTACTATT
Done.