11 BLAST - Basic Local Alignment Search Tool

Comparing nucleotide or protein sequences to sequence databases and calculating the statistical significance using BLAST++. The HTML result is visualized using BLASTJS.

11.1 Customizable BLAST

1. Essential parameters: Only BLAST program, Datasets, and QUery sequences are needed for basic usages.
2. Advanced parameters: 12 other parameters for controlling BLAST alignments are supplied with detailed explanations.

Simply, users just need to select each parameter sequentially as labeled in the figure (or simply just click the Demo1, and Demo2 buttons).

Figure 11.1: A screenshot of the one type of selection for BLAST.

Clicking Submit, after several seconds, the BLAST result would be listed below.

11.2 BLAST HTML results

Figure 11.2: The results of multiple query sequences would be shown separately. For each query sequences, the result contains 4 parts: 1. Overview of the alignment status; 2. Tables showing matched IDs and related matching statistics; 3. Shortcuts for sending matched genes to other modules. 4. Two sequences alignment view for each

11.3 BLAST Table results

For getting the matched IDs of your multiple sequences, set Output format to Table would give more concise results.

11.4 Reference

1. BlasterJS: A novel interactive JavaScript visualisation component for BLAST alignment results. Aitor Blanco-Míguez, Florentino Fdez-Riverola, Borja Sánchez, Anália Lourenço. PMID: 30300406 PMCID: PMC6177166 DOI: 10.1371/journal.pone.0205286
2. Boratyn GM, Camacho C, Cooper PS, Coulouris G, Fong A, Ma N, Madden TL, Matten WT, McGinnis SD, Merezhuk Y, Raytselis Y, Sayers EW, Tao T, Ye J, & Zaretskaya I. (2013) “BLAST: a more efficient report with usability improvements.”Nucleic Acids Res. 41:W29-W33. PubMed