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


NUCLEAR STATISTICS FOR THE MAMMALIA CLASS
Sat Feb 6 19:51:57 2010

Contents of the Secondary Database
  • Total number of nuclear Polymorphic sets analyzed: 4108
  • Number of Sequences analyzed: 35281
    • Number of different Species analyzed: 902
    • Number of different Genes analyzed: 1542
    • Total number of Analysis units: 10425 [Phylogeny]
      (average number of analysis units per polymorphic set: 2.5)
      • CDS: 5225
      • exon: 3390
      • intron: 1419
      • 5ŽUTR: 100
      • 3ŽUTR: 135
      • promoter: 156

      •  

QUALITY OF THE ALIGNMENTS:

  • Number of Analysis units according to the "Number of sequences":
    • Low quality (2-5): 8683
    • Medium quality (6-10): 912
    • High quality (>10): 830
       
  • Number of Analysis units according to the "Percentage of gaps or ambiguous bases":
    • Low quality (≥30% =  ! ): 58
    • Medium quality (≥10%-<30% =    K ): 186
    • High quality (<10% =   J ): 10181
       
  • Number of Analysis units according to the "Percentage of difference in size between the longest and the shortest sequences":
    • Low quality (≥30% =  ! ): 1161
    • Medium quality (≥10%-<30% =    K ): 855
    • High quality (<10% =   J ): 8409
       

SET CONFIDENCE:

  • Existence in NCBI PopSet*: 22.4% (2338/10425)
  • Consecutive GenBank accession numbers**: 39.7% (4139/10425)
  • One or more shared references**: 54.5% (5681/10425)
  • Journals* (Genetics, Mol.Biol.Evol., J.Mol.Evol., Mol.Phylogenet.Evol.): 13.2% (1373/10425)

* 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)
3ŽUTR 13512948.9912.1518.4423.50.003860.00370
5ŽUTR 1009155.9714.0199.2143.40.006250.00620
CDS 5225348154.315.1581.7450.70.012000.01187
exon 3389132155.604.4259.6229.90.010040.00997
intron 141385647.967.5650.0553.70.005370.00530
promoter 15614348.0014.01112.4694.40.005890.00587


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Contents of the Primary the Database

  • Total number of Sequences: 94265
    • Number of different Species: 3032
    • Number of different Genes: 13455
       
  • Total number of References 26708
    • Published: 7903
    • Submitted: 12941
    • In press: 331
    • Published Only in Database: 142
    • Unpublished: 4557
    • Thesis: 56
    • Number of different Journals: 546

 




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