![]() ![]() ![]() Molecular Weight = calculated molecular weight - 61.96 by primer extension), the value is adjusted for the removed phosphate group by using: If the sequence is a single-stranded, synthesised oligonucleotide (e.g. The DNA molecular weight assumes no modification of the terminal groups of the sequence. If the sequence is greater than 13bp in length (Chester and Marshak 1993): If the sequence is less than 14bp in length (Marmur and Doty 1962): Rough T m: A rough calculation of the melting point for a nucleotide sequence using the following calculations:.These groupings were taken from Biochemistry 8th Edition (Berg, Tymoczko, Gatto, and Stryer). Total frequencies and percentage frequencies of non-gap, non-ambiguous amino acids are given for Acidic (DE), Basic (RHK), Charged (DERHK), Polar Uncharged (NCQSTYW), Hydrophobic (AGILMPVFW), GC-rich (GARP), and AT-rich (FINKY) groups. Amino acid group frequencies: This section list the frequencies of certain types of amino acids as groups.If any CDS contains non-standard start codons then some of the 64 codons may be split into 2 entries based on whether they translate to methionine or their standard translation. For codon usage statistics, the frequency of all 64 codons (with their associated amino acid) will be displayed. ![]() Click Options to change the translation options. Amino acid and codon frequencies: These are listed for nucleotide sequences based on the current translation options.The G+C content for nucleotide sequences is shown as well for easy reference (see GC content, below). If there are gaps, then a second percentage frequency is calculated ignoring gap characters. It gives the frequency of each nucleotide or amino acid over the entire length of the sequence, including gaps. Residue frequencies: This section lists the residues and their frequencies for both DNA and amino acid sequences, for both single sequences and alignments/assemblies.Note that for performance reasons these statistics are only calculated on documents comprised of less than 10,000 bp or aa (this threshold applies to the total number of residues and gaps over all sequences in a document). If you wish to add these statistics to the document table for documents created in earlier versions of Geneious, select the folder containing the document and go to Tools → Preferences → Appearance and Behavior and select Recalculate statistics now. Molecular weight and protein statistics were added to the document table in Prime 2021, and will not appear in the table for documents created in an earlier version of Geneious unless that document is edited in Prime 2021. The value in the document table will be for the entire document, not the currently selected region. These include sequence length, % pairwise identity, % identical sites, mean coverage, molecular weight and several protein statistics such as extinction coefficient and isoelectric point. Several of the metrics displayed in the Statistics tab can also be displayed as columns in the document table. The length and number of sequences currently selected is shown at the top of the Statistics tab. If only part of the sequence/alignment or assembly is selected then the statistics displayed will correspond to the highlighted part. The Statistics tab displays statistics about the sequence(s) being viewed. ![]()
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