Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000123.1 Kokia drynarioides strain JFW-HI SEQ_110768, 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: 6903
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36


Found at i:4341 original size:22 final size:23

Alignment explanation


    Indices: 4301--4352  Score: 63
    Period size: 22  Copynumber: 2.3  Consensus size: 23

       4291 TTAATTGTGG

                                *  
       4301 ATTTATTAAAAATTCAAAATGA-
          1 ATTTATTAAAAATTCAAAATAAT

                        *           
       4323 ATTTATTAAAGACTT-AAAATAAT
          1 ATTTATTAAA-AATTCAAAATAAT

                   
       4346 ATTTATT
          1 ATTTATT

       4353 CTTTTATATA


Statistics
Matches: 26,  Mismatches: 2, Indels: 3
        0.84            0.06        0.10

Matches are distributed among these distances:
  22   16  0.62
  23   10  0.38

ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42


Consensus pattern (23 bp):   
ATTTATTAAAAATTCAAAATAAT

Found at i:5551 original size:24 final size:23

Alignment explanation


    Indices: 5524--5599  Score: 82
    Period size: 24  Copynumber: 3.2  Consensus size: 23

       5514 TTTATTAAAA

                   *               
       5524 TTTTTTTAGAATTTTATGGTTTT
          1 TTTTTTTTGAATTTTATGGTTTT

                              *       
       5547 TTTTTTCTCT-AATTTTAGGGATTTT
          1 TTTTTT-T-TGAATTTTATGG-TTTT

                     *        *    
       5572 TTTTTTTTGCATTTTATGATTTT
          1 TTTTTTTTGAATTTTATGGTTTT

                 
       5595 TTTTT
          1 TTTTT

       5600 ATAATTTAAA


Statistics
Matches: 44,  Mismatches: 5, Indels: 8
        0.77            0.09        0.14

Matches are distributed among these distances:
  23   16  0.36
  24   18  0.41
  25   10  0.23

ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71


Consensus pattern (23 bp):   
TTTTTTTTGAATTTTATGGTTTT

Found at i:5869 original size:16 final size:17

Alignment explanation


    Indices: 5836--5873  Score: 51
    Period size: 17  Copynumber: 2.3  Consensus size: 17

       5826 TTTGTGCTTA

                             
       5836 TTTTATTTTTAATGATT
          1 TTTTATTTTTAATGATT

                *     *      
       5853 TTTTCTTTTTTAT-ATT
          1 TTTTATTTTTAATGATT

                 
       5869 TTTTA
          1 TTTTA

       5874 ACATTTTGAA


Statistics
Matches: 18,  Mismatches: 3, Indels: 1
        0.82            0.14        0.05

Matches are distributed among these distances:
  16    7  0.39
  17   11  0.61

ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76


Consensus pattern (17 bp):   
TTTTATTTTTAATGATT
Done.