Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005305.1 Kokia drynarioides strain JFW-HI SEQ_119234, 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, 857

Length: 1429
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33


Found at i:151 original size:30 final size:29

Alignment explanation


    Indices: 103--168  Score: 89
    Period size: 30  Copynumber: 2.2  Consensus size: 29

         93 ACTTGGCATT

                        *        *        
        103 AAATTTTGAAGGGTTTAATTATAATTTTCA
          1 AAATTTTGAAGGATTTAATTAAAATTTT-A

                                          
        133 AAACTTTTG-AGGATTTAATTAAAATTTTA
          1 AAA-TTTTGAAGGATTTAATTAAAATTTTA

                   
        162 AAATTTT
          1 AAATTTT

        169 CTTGAAAATT


Statistics
Matches: 33,  Mismatches: 2, Indels: 4
        0.85            0.05        0.10

Matches are distributed among these distances:
  28    4  0.12
  29    4  0.12
  30   20  0.61
  31    5  0.15

ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47


Consensus pattern (29 bp):   
AAATTTTGAAGGATTTAATTAAAATTTTA

Found at i:204 original size:54 final size:53

Alignment explanation


    Indices: 137--238  Score: 143
    Period size: 54  Copynumber: 1.9  Consensus size: 53

        127 TTTTCAAAAC

                                                                  
        137 TTTTGAGGATTTAATTAAAATTTTAAAATTTTCTTG-AAAATTAATTAGTATAA
          1 TTTTGAGGATTTAATTAAAATTTT-AAATTTTCTTGAAAAATTAATTAGTATAA

                     *          *    *      *                
        190 TTTTAGAGGGTTTAATTAAACTTTTCAATTTTTTTGAAAAATTAATTAG
          1 TTTT-GAGGATTTAATTAAAATTTTAAATTTTCTTGAAAAATTAATTAG

        239 AATTTGCAAA


Statistics
Matches: 43,  Mismatches: 4, Indels: 3
        0.86            0.08        0.06

Matches are distributed among these distances:
  53   13  0.30
  54   30  0.70

ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48


Consensus pattern (53 bp):   
TTTTGAGGATTTAATTAAAATTTTAAATTTTCTTGAAAAATTAATTAGTATAA
Done.