Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006885.1 Kokia drynarioides strain JFW-HI SEQ_121486, 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: 5941
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37


Found at i:2793 original size:33 final size:34

Alignment explanation


    Indices: 2745--2819  Score: 109
    Period size: 33  Copynumber: 2.2  Consensus size: 34

       2735 TATCTAAACA

                                             * 
       2745 TTTTTTTATCCAATTTGGTA-CTCAAACTTGACGC
          1 TTTTTTTATCCAATTTGGTACCT-AAACTTGACAC

                      *                       
       2779 TTTTTTT-TCTAATTTGGTACCTAAACTTGACAC
          1 TTTTTTTATCCAATTTGGTACCTAAACTTGACAC

                    
       2812 TTTTTTTA
          1 TTTTTTTA

       2820 AGTTGGTACT


Statistics
Matches: 37,  Mismatches: 2, Indels: 4
        0.86            0.05        0.09

Matches are distributed among these distances:
  33   28  0.76
  34    9  0.24

ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51


Consensus pattern (34 bp):   
TTTTTTTATCCAATTTGGTACCTAAACTTGACAC

Found at i:2826 original size:30 final size:32

Alignment explanation


    Indices: 2759--2836  Score: 90
    Period size: 30  Copynumber: 2.5  Consensus size: 32

       2749 TTTATCCAAT

                               *             *
       2759 TTGGTA-CTCAAACTTGACGCTTTTTTTTCTAAT
          1 TTGGTACCT-AAACTTGACAC-TTTTTTTCTAAG

                                            
       2792 TTGGTACCTAAACTTGACAC-TTTTTT-TAAG
          1 TTGGTACCTAAACTTGACACTTTTTTTCTAAG

                   *       
       2822 TTGGTACTTAAACTT
          1 TTGGTACCTAAACTT

       2837 TTTCGGATCC


Statistics
Matches: 41,  Mismatches: 3, Indels: 5
        0.84            0.06        0.10

Matches are distributed among these distances:
  30   17  0.41
  31    6  0.15
  33   16  0.39
  34    2  0.05

ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46


Consensus pattern (32 bp):   
TTGGTACCTAAACTTGACACTTTTTTTCTAAG
Done.