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(1) Nuclear (2) Mitochondrial (3) Both


NUCLEAR STATISTICS FOR THE MAMMALIA GROUP
Mon Feb 8 11:48:42 2010

Contents of the Secondary Database
  • Total number of nuclear Polymorphic sets analyzed: 2377
  • Number of Sequences analyzed: 18804
    • Number of different Species analyzed: 588
    • Number of different Genes analyzed: 817
    • Total number of Analysis units: 5946 [Phylogeny]
      (average number of analysis units per polymorphic set: 2.5)
      • CDS: 3002
      • exon: 1951
      • intron: 799
      • 5´UTR: 46
      • 3´UTR: 90
      • promoter: 58

      •  

QUALITY OF THE ALIGNMENTS:

  • Number of Analysis units according to the "Number of sequences":
    • Low quality (2-5): 5102
    • Medium quality (6-10): 457
    • High quality (>10): 387
       
  • Number of Analysis units according to the "Percentage of gaps or ambiguous bases":
    • Low quality (≥30% =  ! ): 19
    • Medium quality (≥10%-<30% =    K ): 67
    • High quality (<10% =   J ): 5860
       
  • Number of Analysis units according to the "Percentage of difference in size between the longest and the shortest sequences":
    • Low quality (≥30% =  ! ): 667
    • Medium quality (≥10%-<30% =    K ): 530
    • High quality (<10% =   J ): 4749
       

SET CONFIDENCE:

  • Existence in NCBI PopSet*: 24.9% (1482/5946)
  • Consecutive GenBank accession numbers**: 37.9% (2254/5946)
  • One or more shared references**: 48.8% (2901/5946)
  • Journals* (Genetics, Mol.Biol.Evol., J.Mol.Evol., Mol.Phylogenet.Evol.): 9.9% (588/5946)

* At least one sequence in the set
** All the sequences in the set


AVERAGES BY GENE REGIONS:

  #Aligns #Polym. sets G+C Num. seqs. Align. length. Analyzed sites θ (Theta) π (Pi)
3´UTR 908747.323.4433.5306.50.003820.00375
5´UTR 464456.603.3287.8195.90.003540.00360
CDS 3002201854.124.7560.8436.70.012260.01217
exon 195073855.744.1251.1217.40.011480.01138
intron 79950245.737.1668.6575.30.004520.00449
promoter 585548.735.71046.5647.20.002930.00279


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Contents of the Primary the Database

  • Total number of Sequences: 39879
    • Number of different Species: 1577
    • Number of different Genes: 4554
       
  • Total number of References 11229
    • Published: 2234
    • Submitted: 5890
    • In press: 140
    • Published Only in Database: 79
    • Unpublished: 2529
    • Thesis: 26
    • Number of different Journals: 304

 




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