Closest-reference screening
Preliminary screening result
Analysis ID: —
Waiting for analysis.
Results will appear after the analysis engine returns a response.
What this step shows
This step summarizes the query quality control and closest-reference screening result: sequence length, ORF5 coverage, ambiguous bases, best reference match, nucleotide identity, orientation, support level, and the closest references returned by the engine.
Screening process
Closest PRRSV-2 ORF5 references
This table summarizes the closest references returned by the Python engine. Closest references are reported for context. A reliable lineage signal is reported only when the configured support thresholds are met.
| Rank | Reference | Lineage | Identity | Mismatches | Orientation | Metadata |
|---|---|---|---|---|---|---|
| Run the analysis to display closest references. | ||||||
Master tree context
Phylogenetic context from the PRRSV-2 ORF5 master tree
Tree context will appear when the closest reference is represented in the PRRSV-2 ORF5 master tree.
What this step shows
This step links the closest reference from the screening result to the PRRSV-2 ORF5 master tree. It reports whether that reference is represented in the tree and shows a reduced local view around it, not the full Newick tree, alignment, FASTA dataset, or curated metadata table.
Local phylogenetic context
Reduced local tree view around the closest reference.
Displayed reference window
Small capped reference window around the closest match. The graphical view above is reduced to the displayed references and does not expose the full tree, alignment, FASTA dataset, or curated metadata table.
| Tree ID | Accession | Country | Lineage | Sublineage | Best match |
|---|---|---|---|---|---|
| Tree neighborhood will appear after analysis. | |||||
ORF5 amino acid comparison
Translated GP5 comparison
Amino acid comparison will appear after the sequence is translated in the inferred ORF5 coding frame.
What this step shows
This step translates the submitted ORF5 sequence into amino acids using the orientation and reference-frame context inferred by the nucleotide screening. It compares the derived GP5 sequence against the closest reference and a fixed vaccine reference panel, helping separate coding-level amino acid changes from synonymous nucleotide variation.
Protein interpretation note
No protein-level warnings were returned.
Jalview-style protein view
ORF5 amino acid alignment viewer
Rows include fixed vaccine references, the closest nucleotide reference, and the submitted sequence translated into the ORF5 frame. Scroll horizontally to inspect positions 1–200.
Same as submitted sequence
Different amino acid
Submitted sequence differs from best match
Not covered / gap
Ambiguous amino acid
Stop codon
| Vaccine reference | Lineage | AA identity | AA differences | Comparable AA |
|---|---|---|---|---|
| Vaccine amino acid comparison will appear after analysis. | ||||
Report and traceability
Public analysis report
Download a single-file HTML report or open a print-optimized PDF-ready report after the analysis is completed.
Reports are generated as a single-file HTML report and a print-optimized PDF-ready view.
Both exclude the submitted nucleotide sequence, the reference FASTA, the curated metadata table,
alignments, and the master tree file.
Storage status
Storage status will appear after analysis.
Advanced technical output: raw JSON response
Technical review only.
This section is intended for validation, debugging, and traceability during testing. It does not include the submitted nucleotide sequence, the complete reference FASTA, the master Newick tree, the alignment, or the curated metadata table. It may include the derived translated amino acid sequence used for the on-screen protein comparison. Submitted form metadata may still appear because it is part of the analysis request.
No API response yet.