SARS-CoV-2 Sequence Locator

Purpose: To find the position of your nucleotide or protein sequence(s) relative to the appropriate viral reference strain; or to give you a sequence based on a coordinate location.

Find the location of a sequence

Sequence base type	Nucleotide Amino acid
Paste your input here	CGTGTGATGGTACAACATTTACTTATGCATCAGCATTGTGGGAAATCCAACCGGTTGTAGATGCAGATAGTAAAATTGTTCAACTTAGTGAAATTAGTATGGACAATTCACCTAATTTAGCATGGCCTCTTATTGTAACAGCTTTAAGGGCCAATTCTGCTGTCAAATTACAGAATAATGAGCTTAGTCCTGTTGCACTACGACAGATGTCTTGTGCTGCCGGTACTACACAAACTGCTTGCACTGATGACAATGCGTTAGCTTACTACAACACAACAAAGGGAGGTAGGTTTGTACTTGCACTGTTATCCGATTTACAGGATTTGAAATGGGCTAGATTCCCTAAGAGTGATGGAACTGGTACTATCTATACAGAACTGGAACCACCTTGTAGGTTTGTTACAGACACACCTAAAGGTCCTAAAGTGAAGTATTTATACTTTATTAAAGGATTAAACAACCTAAATAGAGGTATGGTACTTGGTAGTTTAGCTGCCACAGTACGTCTACAAGCTGGTAATGCAACAGAAGTGCCTGCCAATTCAACTGTATTATCTTTCTGTGCTTTTGCTGTAGATGCTGCTAAAGCTTACAAAGATTATCTAGCTAGTGGGGGACAACCAATCACTAATTGTGTTAAGATGTTGTGTACACACACTGGTACTGGTCAGGCAATAACAGTTACACCGGAAGCCAATATGGATCAAGAATCCTTTGGTGGTGCATCGTGTTGTCTGTACTGCCGTTGCCACATAGATCATCCAAATCCTAAAGGATTTTGTGACTTAAAAGGTAAGTATGTACAAATACCTACAACTTGTGCTAATGACCCTGTGGGTTTTACACTTAAAAACACAGTCTGTACCGTCTGCGGTATGTGGAAAGGTTATGGCTGTAGTTGTGATCAACTCCGCGAACCCATGCTTCAGTCAGCTGATGCACAATCGTTTTTAAACGGGTTTGCGGTGTAAGTGCCGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACTGATGTCGTATACAGGGCTTTTGACATCTACAATGATAAAGTAGCTGGTTTTGCTAAATTCCTAAAAACTAATTGTTGTCGCTTCCAAGAAAAGGACGAAGATGACAATTTAATTGATTCTTACTTTGTAGTTAA
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Retrieve a region by its coordinates of reference sequences

Enter coordinates:	from to (Enter '1' and 'end' to retrieve the entire region.)
Region
Retrieve	Nucleotide or Amino acid output
	include surrounding region

Details: This tool has many uses:

find the start and end coordinates of your input sequence(s), relative to the reference strains:
- Genbank: Wuhan-Hu-1 NC_045512
- GISAID: hCoV-19/Wuhan/WIV04/2019 | EPI_ISL_402124
show which genes or proteins your query touches,
show a graphical view of the location of your sequence(s) relative to the reference sequence,
display both the nucleotide sequence and protein translation of your input as it aligns to reference sequences,
retrieve a section of the reference sequences based on its coordinates.

last modified: Wed Mar 10 13:04 2021

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Questions or comments? Contact us at seq-info@lanl.gov.