Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007308.1 Kokia drynarioides strain JFW-HI SEQ_121924, 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: 3706
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35


Found at i:3219 original size:26 final size:25

Alignment explanation


    Indices: 3158--3219  Score: 63
    Period size: 26  Copynumber: 2.4  Consensus size: 25

       3148 CTAGCGGTGG

                                      
       3158 CTTTTATTTTTTATGTTTTTTCCCTT
          1 CTTTT-TTTTTTATGTTTTTTCCCTT

            *                     *    
       3184 ATTTGTTTTTTTAT-TGTTTTTGCCTT
          1 CTTT-TTTTTTTATGT-TTTTTCCCTT

                 *    
       3210 CTTTTCTTTT
          1 CTTTTTTTTT

       3220 ATTTGGTTTG


Statistics
Matches: 30,  Mismatches: 4, Indels: 5
        0.77            0.10        0.13

Matches are distributed among these distances:
  25    6  0.20
  26   23  0.77
  27    1  0.03

ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74


Consensus pattern (25 bp):   
CTTTTTTTTTTATGTTTTTTCCCTT

Found at i:3455 original size:26 final size:25

Alignment explanation


    Indices: 3395--3457  Score: 63
    Period size: 26  Copynumber: 2.4  Consensus size: 25

       3385 TTAGTATTGT

                *       *           *
       3395 TTTTAAAAAGTGTTTTTGAGAAGTG
          1 TTTTGAAAAGTGCTTTTGAGAAGTC

             **                        
       3420 TGGTGAAAAAGTGCTTTTGAGAAGTTC
          1 TTTTG-AAAAGTGCTTTTGAGAAG-TC

                       
       3447 TTTTGAAAAGT
          1 TTTTGAAAAGT

       3458 TTGGTTTAAG


Statistics
Matches: 29,  Mismatches: 7, Indels: 3
        0.74            0.18        0.08

Matches are distributed among these distances:
  25    2  0.07
  26   23  0.79
  27    4  0.14

ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40


Consensus pattern (25 bp):   
TTTTGAAAAGTGCTTTTGAGAAGTC
Done.