Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001883.1 Kokia drynarioides strain JFW-HI SEQ_113655, 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: 1712
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42


Found at i:401 original size:89 final size:89

Alignment explanation


    Indices: 304--561  Score: 421
    Period size: 89  Copynumber: 2.9  Consensus size: 89

        294 AATAAGATTA

                                                                   *         
        304 TTGTACATTGATATTATTTACTTAGTTATGTTTTACTTCTTAAATTAAAAAATTACTTATCCCAT
          1 TTGTACATTGATATTATTTACTTAGTTATGTTTTACTTCTTAAATTAAAAAATTAATTATCCCAT

                                    
        369 GCTTTTTTGCAACTAAAAAGTTTC
         66 GCTTTTTTGCAACTAAAAAGTTTC

                                               *            *   *  *         
        393 TTGTACATTGATATTATTTACTTAGTTATGTTTTATTTCTTAAATTAACAAACTATTTATCCCAT
          1 TTGTACATTGATATTATTTACTTAGTTATGTTTTACTTCTTAAATTAAAAAATTAATTATCCCAT

                            *       
        458 GCTTTTTTGCAACTAATAAGTTTC
         66 GCTTTTTTGCAACTAAAAAGTTTC

                                 *                                        *  
        482 TTGTACATTGATATTATTTACATAGTTATGTTTT-CTTCTTAAATTAAAAAATTAATTATCCTAT
          1 TTGTACATTGATATTATTTACTTAGTTATGTTTTACTTCTTAAATTAAAAAATTAATTATCCCAT

                             
        546 G-TTTTTATGCAACTAA
         66 GCTTTTT-TGCAACTAA

        562 CTTCAACTAT


Statistics
Matches: 157,  Mismatches: 11, Indels: 3
        0.92            0.06        0.02

Matches are distributed among these distances:
  87    5  0.03
  88   35  0.22
  89  117  0.75

ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48


Consensus pattern (89 bp):   
TTGTACATTGATATTATTTACTTAGTTATGTTTTACTTCTTAAATTAAAAAATTAATTATCCCAT
GCTTTTTTGCAACTAAAAAGTTTC

Found at i:932 original size:3 final size:3

Alignment explanation


    Indices: 919--954  Score: 65
    Period size: 3  Copynumber: 12.3  Consensus size: 3

        909 TTTAGGAAAG

                                                             
        919 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

        955 AGTAATTCGA


Statistics
Matches: 32,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   2    2  0.06
   3   30  0.94

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Done.