Illumina

Unassembled isolate genome sequences (short reads, single- or paired-end FASTQ files)

This tutorial follows the same path whether compressed or uncompressed. We advise using compressed (GZIP) files for ease of upload and download.

Select 'Illumina'

Single-end (unassembled genome isolate)

For storing DNA sequencing reads from a single end of an Illumina sequencing run, where each read is represented by four lines of data, including the sequence and associated quality scores.

Upload single-end FASTQ file

Upload your sample’s sequence file by dragging it into the ‘Upload’ box or by clicking the upload box and navigating to the directory of your sequences for upload.

Proceed with upload

After your file has been uploaded, you can proceed with processing each sample by selecting the blue ‘Upload’ box.

EzBioCloud takes it from here

EzBioCloud's Genome Identification tool will search its genome database for the closest matches to your sample.

Paired-end (unassembled genome isolate)

For storing paired-end DNA sequencing reads from an Illumina sequencing run, where each read pair is represented by two sets of four lines of data, one for each end of the read.

Upload paired-end FASTQ files

Upload your sample’s sequence files by dragging it into the ‘Upload’ box or by clicking the upload box and navigating to the directory of your sequences for upload.

Proceed with upload

After your file has been uploaded, you can proceed with processing each sample by selecting the blue ‘Upload’ box.

For Paired-end reads, both files (R1 and R2) are required. Ensure that these are matching. Although this isn’t indicative of the true strand orientation, R1 is considered the ‘forward strand’ and R2, the ‘reverse strand’.

EzBioCloud takes it from here

EzBioCloud's Genome Identification tool will search its genome database for the closest matches to your sample.

Compressed

After your file has been uploaded, you can proceed with processing each sample by selecting the blue ‘Upload’ box.

The credit cost will be displayed at the bottom left of the box.

EzBioCloud takes it from here

EzBioCloud's 16S Identification tool will search its 16S database for the closest matches to your sample.

The status bar will indicate when your sample report is ready in no time.

Once your sample has been processed, it will remain under your 16S Identification list.

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Text upload

Upload your text format sample

Alternatively, you can directly upload the sequence text by selecting ‘Upload in text’ format and inserting the sequence.

Copy and paste the 16S rRNA text into the 'Sequence...' box and select the blue 'Next' box.

Here we copied the 16S rRNA text in the FASTA format style which begins with '>Identifier'.

Proceed with upload

After the 16S rRNA text has been uploaded, you can proceed with processing the sample by selecting the blue ‘Upload’ box.

EzBioCloud takes it from here

EzBioCloud's 16S Identification tool will search its 16S database for the closest matches to your sample.

Once your sample has been processed, it will remain under your 16S Identification list.

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Explore your sample report

Select the PDF option under the ‘Report’ column for an in-depth analysis of your sample. This includes species-to-strain identification, AMR genes, VIR factors, coverage, top hits (matches), and a phylogenetic tree

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Troubleshooting

If the ‘Upload’ button is unavailable, check the error messages written in red.

e.g. Check the R1 and R2 files match for paired-end reads.