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Read: CACGTAG—TA CIGAR: 2S5M2D2M where: 2S = 2 soft clipping (could be mismatches, or a read longer than the matched sequence) 5M = 5 matches or mismatches 2D = 2 deletions 2M = 2 matches or mismatches The original CIGAR format from the exonerate alignment program did not distinguish between mismatches or matches with the M character.
The output is the predicted peptide sequences in the FASTA format, and a definition line that includes the query ID, the translation reading frame and the nucleotide positions where the coding region begins and ends. OrfPredictor facilitates the annotation of EST-derived sequences, particularly, for large-scale EST projects.
This suggests that early ribosomes read the second codon position most carefully, to control hydrophobicity patterns in protein sequences. The first table—the standard table—can be used to translate nucleotide triplets into the corresponding amino acid or appropriate signal if it is a start or stop codon. The second table, appropriately ...
The following is the chart of the International Phonetic Alphabet, a standardized system of phonetic symbols devised and maintained by the International Phonetic Association. It is not a complete list of all possible speech sounds in the world's languages, only those about which stand-alone articles exist in this encyclopedia.
Transcription is the process of copying a segment of DNA into RNA for the purpose of gene expression. Some segments of DNA are transcribed into RNA molecules that can encode proteins, called messenger RNA (mRNA). Other segments of DNA are transcribed into RNA molecules called non-coding RNAs (ncRNAs).
A consensus logo is a simplified variation of a sequence logo that can be embedded in text format. Like a sequence logo, a consensus logo is created from a collection of aligned protein or DNA/RNA sequences and conveys information about the conservation of each position of a sequence motif or sequence alignment [1] [4].
To perform a run-off transcription assay, a gene of interest, including the promoter, is cloned into a plasmid. [4] The plasmid is digested at a known restriction enzyme cut site downstream from the transcription start site such that the expected mRNA run-off product would be easily separated by gel electrophoresis .
Line chart showing the population of the town of Pushkin, Saint Petersburg from 1800 to 2010, measured at various intervals. A line chart or line graph, also known as curve chart, [1] is a type of chart that displays information as a series of data points called 'markers' connected by straight line segments. [2]