Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008432.1 Kokia drynarioides strain JFW-HI SEQ_123103, 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: 5605
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31


Found at i:3831 original size:30 final size:31

Alignment explanation


    Indices: 3795--3932  Score: 92
    Period size: 31  Copynumber: 4.5  Consensus size: 31

       3785 CGATCCCAAA

                       *   *               
       3795 AAGTTTAAGTATCAACTTA-AAAAAAGTGTC
          1 AAGTTTAAGTACCAAATTAGAAAAAAGTGTC

                   *            *         *
       3825 AAGTTTAGGTACCAAATTAGGAAAAAGTGTT
          1 AAGTTTAAGTACCAAATTAGAAAAAAGTGTC

                * *           *             *
       3856 AAGTCTGAGTACCAAATTGGACCAAAAA----A
          1 AAGTTTAAGTACCAAATTAGA--AAAAAGTGTC

                   *               *        
       3885 AAGTTTAGGTACCAAATTACGAAGAAA-TGTC
          1 AAGTTTAAGTACCAAATTA-GAAAAAAGTGTC

                              
       3916 AAGTTT-AGATACCAAAT
          1 AAGTTTAAG-TACCAAAT

       3933 GTGATATTAA


Statistics
Matches: 82,  Mismatches: 18, Indels: 15
        0.71            0.16        0.13

Matches are distributed among these distances:
  28    4  0.05
  29   15  0.18
  30   19  0.23
  31   39  0.48
  33    5  0.06

ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26


Consensus pattern (31 bp):   
AAGTTTAAGTACCAAATTAGAAAAAAGTGTC

Found at i:3852 original size:31 final size:30

Alignment explanation


    Indices: 3815--3932  Score: 100
    Period size: 31  Copynumber: 3.9  Consensus size: 30

       3805 ATCAACTTAA

                                           
       3815 AAAAAGTGTCAAGTTTAGGTACCAAATTAGG
          1 AAAAA-TGTCAAGTTTAGGTACCAAATTAGG

                     *    *                 
       3846 AAAAAGTGTTAAGTCT-GAGTACCAAATT-GG
          1 AAAAA-TGTCAAGTTTAG-GTACCAAATTAGG

                     **                   * 
       3876 ACCAAAA--AAAAGTTTAGGTACCAAATTACG
          1 A--AAAATGTCAAGTTTAGGTACCAAATTAGG

                              *        
       3906 AAGAAATGTCAAGTTTAGATACCAAAT
          1 AA-AAATGTCAAGTTTAGGTACCAAAT

       3933 GTGATATTAA


Statistics
Matches: 70,  Mismatches: 9, Indels: 16
        0.74            0.09        0.17

Matches are distributed among these distances:
  28    1  0.01
  29   18  0.26
  30    7  0.10
  31   40  0.57
  32    4  0.06

ACGTcount: A:0.45, C:0.12, G:0.19, T:0.25


Consensus pattern (30 bp):   
AAAAATGTCAAGTTTAGGTACCAAATTAGG
Done.