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Run AOminer | AOminer Results

There are several ways to utilize the AcaFinder website:

• (i) To use AOminer and scan for potential anti-CRISPR operons (AOs) in you genomic sequence or operon of interest, go to Run AOminer page
• (ii) For local resources, go to the AOminer github page.
• (iii) For introduction to the AOminer team, go to About
• (iv) For an example out of AOminer, go to Example.

To input a genomic sequence for AO screening, go to Run AOminer on the navigation bar. Sequence data can be submitted in two ways:

• Users could scan an assembled genome for potential AOs by uploading nucleotide sequences, with/without annotation information (of which includes both a FAA & GFF file).
• Users can upload protein sequences of an operon or gene cluster (NOTE: a gene cluster does not need to follow the parameter requirements of a short-gene-operon) to scan, and determine its potential of being AO.

**Data of ONE genome/operon may be submitted at a time** Results are then displayed, users can view where the AOs and their association with prophages, CRISPR-Cas systems (if any), and annotations

The output of AOminer consists of the following:

• All Anti-CRISPR operons: Summary table of predicted anti-CRISPR operons and all associated prophage & CRISPR-Cas information
• Prophage Regions: Table of all prophage regions found
• Complete CRISPR Cas & Self-Targeting Spacers: Tables of all complete CRISPR-Cas systems found
• If you have NOT SELECTED the "Prokaryote Genome/Contig" option or SELECTED "Single Operon Prediction", then prophage & CRISPR-Cas will not be predicted

Table columns explained (All tables combined)

Operon Number: Operon ID of Aca operon identified

AO Score: HMM model generated score of operon being AO [the higher the score the more confident the prediction]

ProteinID: Protein ID of annotated protein

ContigID: ID of contig the protein resides

Protein Length: Length of protein

Start: Start position of protein

End: End position of protein

Acr Homologous: Acrs that share homology with protein

With HTH: Proteins found with HTH domains that could potentially be Aca proteins

Pfam: Pfam database protein annotations

Complete CRISPR Cas and STSS: Complete CRISPR-Cas found, their type and location. Represented in the format of CONTIG|TYPE|Operon Start-End position|STSS info(STSS=spacer_name:spacer_location=>targeting_contig:targeting_location+spacer_name_2:spacer_location_2=>.../No_STSS)

Operon in Prophage: If protein in predicted prophage region, the column displays said predicted prophage region in the format of CONTIG:Prophage_location

Protein Sequence: Amino acid sequence of protein

Contig Length: Length of contig (nt) the protein resides

CRISPR Cas Type: Predicted type of CRISPR-Cas

Cas operon and location: ID and location of Cas operon (from CRISPRCasTyper, CRISPR_OperonID|Location_start-end)

CRISPR operon and location: ID and location of CRISPR operon (from CRISPRCasTyper, CRISPR_OperonID|Location_start-end)

STSS: Self-targeting information (spacer_name:spacer_location=>targeting_contig:targeting_location+spacer_name_2:spacer_location_2=>.../No_STSS)

If you have additional questions or comments regarding AOminer, please do not hesitate to contact us .