Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013784.1 Kokia drynarioides strain JFW-HI SEQ_128812, 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: 2693
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39


Found at i:1332 original size:29 final size:29

Alignment explanation


    Indices: 1289--1352  Score: 78
    Period size: 29  Copynumber: 2.2  Consensus size: 29

       1279 ATTTAATATA

                                          
       1289 AATATAAATATATAATTATTATT-TAACAT
          1 AATATAAATATATAATT-TTATTATAACAT

                   *            *         
       1318 -ATATAATTAATATAATTTTTTTATAACAT
          1 AATATAAAT-ATATAATTTTATTATAACAT

                  
       1347 AATATA
          1 AATATA

       1353 TTCAAGTTGG


Statistics
Matches: 30,  Mismatches: 2, Indels: 5
        0.81            0.05        0.14

Matches are distributed among these distances:
  28   11  0.37
  29   14  0.47
  30    5  0.17

ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47


Consensus pattern (29 bp):   
AATATAAATATATAATTTTATTATAACAT

Found at i:2002 original size:30 final size:30

Alignment explanation


    Indices: 1940--2004  Score: 96
    Period size: 30  Copynumber: 2.2  Consensus size: 30

       1930 ACTTATTTTA

                                     *    
       1940 TTGTTAATTTTGTTATTATTTAAGATAAAT
          1 TTGTTAATTTTGTTATTATTTAAGAGAAAT

                                        *  
       1970 TTGTTAATTTTGTTATTATTTTAA-AGACAT
          1 TTGTTAATTTTGTTATTA-TTTAAGAGAAAT

                 
       2000 TTGTT
          1 TTGTT

       2005 TGTTAAGCTG


Statistics
Matches: 32,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  30   27  0.84
  31    5  0.16

ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58


Consensus pattern (30 bp):   
TTGTTAATTTTGTTATTATTTAAGAGAAAT
Done.