Gene region Please select... Genome (from N-gene ORF start to L-gene ORF end)N-gene ORFP (M1)-gene ORFM (M2)-gene ORFG-gene ORFNv-gene ORFL-gene ORF

Reference sequence ATGGAAGGAGGAATTCGTGCAGCGTTTTCAGGCCTGAATGATGTTAGGATTGACCCCACCGGTGGAGAGGGACGGGTACTTGTACCTGGTGAAGTGGAGCTCGTCGTGTATGTCGGTGGATTTGGTGAGGAAGATAGGAAGGTGATTGTGGATGCACTCTCCGCACTCGGGGGACCCCAGACTGTACAGGCGTTGTCCGTGCTTCTCTCCTATGTACTCCAAGGGAATACACAGGAGGACCTAGAAACAAAGTGCAAGGTCCTCACAGACATGGGCTTCAAGGTGACACAGGCAGCCAGGGCCACGAGCATCGAGGCAGGAATCATGATGCCCATGAGAGAACTGGCCCTGACTGTCAATGACGACAACCTCATGGAAATCGTTAAGGGGACCTTGATGACATGCTCCCTTCTGACCAAGTACTCGGTGGACAAGATGATCAAGTACATCACCAAGAAACTCGGGGAGCTGGCAGACACCCAGGGAGTTGGGGAACTGCAGCACTTCACCGCTGACAAGGCAGCCATCAGGAAACTCGCAGGGTGTGTGCGTCCCGGGCAGAAGATCACCAAGGCCCTCTATGCATTCATCCTGACTGAGATCGCAGACCCCACCACCCAGTCGAGGGCCCGAGCCATGGGGGCGTTGAGGCTCAACGGGACAGGAATGACCATGATTGGGTTGTTCACCCAGGCCGCCAACAACTTGGGCATTGCCCCGGCAAAGCTGCTGGAGGACCTCTGCATGGAGTCCCTGGTTGAGTCAGCCAGACGGATCATCCAGTTGATGAGACAGGTGTCAGAGGCGAAGTCCATCCAAGAGCGCTACGCCATCATGATGAGTCGGATGCTGGGAGAGTCCTACTACAAGTCGTATGGACTCAATGACAACTCCAAGATCTCCTACATTCTGTCACAGATCAGCGGGAAGTACGCAGTGGACTCCCTGGAAGGCCTGGAGGGGATCAAGGTGACAGAGAAGTTCCGCGAGTTCGCTGAGCTTGTTGCGGAAGTCCTGGTGGACAAGTACGAGAGGATTGGAGAGGACAGCACGGAGGTCTCAGATGTCATCAGGGAGGCGGCCAGACAGCACGCGCGCAGGACATCCGCCAAGCCAGAGCCAAGGGCCCGCAACTTCAGGAGCTTCACCGGAAGGGGGAAGGAGCAGGAGAAGGGGGGGTCCGATGATGACGACTACCCCGAGGACTCTGACTAAAAGACACTCCCGTCTCACAACCAACATAGATAGAAAAAAACGGCACGATTATAAGAATTTCTCTTTGATCAAAGCAAGACAAACACTGAAATCACACAATGGCTGATATTGAGATGAGCGAGTCCTTGGTCTTGTCCCATGGATCCCTAGCTGACCTGGATAAGAAACTAGACAACGCCCCTAAGGACAACAGGTCAGCTCTTTTTTCATCTACCTCAGGGTCTACCAGGCAAAAATCAAGTCCCAAGAAGAAGCCCAATCCAACGACGCTGGAGGAAATCATTGGACACTTCGTCCCTGAAGATCTCCAACTAGACGCCACAAAGGCCTTTGGACAGCTCCTGAGACGCATCAAGATGTCCCATCAAGAAGAACTTACTCAACACCTAGAGAAGGTCAACGGGGAAAACCGGGCCAAGATGGGAGCCCTCCTGGAGTCTCAAAAGGAAAATGGGAAGAAGACCGACAACATACTTTCAATCCTCATCGCTATGCGGGGAGAAGGGGCGGAAAATGCATCCAAAAAGCCCAAGGTTCTCGATGGAGACCAGGTCCGGAATGAGAGGGCACTTGGATTCAACCGGGGACTGACCACAGCTGCCATCGCCATGAAGAAGTTCAAGTTGGAAGATCCCCTTGCACTCTGCAAAGGTTCGGTCAAACGGGCAGCTCTCTCCGCCATGGAAAAGGAGGAATATGACGGGGAGCGAGAGACCTACTCCACAGTTTCAAAAGCGATCAAGGCGGAGCTGGACAAGTTAGAGTAGGGACAACACAATGCATCACACAGATAGAAAAAAACGGCACGACTGTTCAAGCACACCAACTCCCAAAGAGAGACGCTCCAGCAGTTAGCAAACCCCAGGCAACCCACAACTAAAGACATGGCTCTGTTCAAACGAAAGCGCACCATCCTGGTTCCTCCTCCTCACCTTACGTCCAATGATGAGGACCGTGTCTCCACCATCCTGACGGAAGGCACCCTCACCATCACGGGCCCTCCTCCGGGGAACCAGGTCGACAAGATCTGCATGGCTATGAAGCTTGCTCGAGCCATTCTCTGCGAGGATCAACACCCAGCCTTCAATCCCCTGGTTCATCTATTCCAGAGTGCTATGATCTTTGGAGAAACCAGCGAGAAGATTGACTTCGGGACTCGCAGTAAGACCCTGATAACAAGCTTCAAGATAGCTGAAGCAAAGGCCATCTACCTGGATTCAAGTCCGGTGAGATCTCGCATAGAGGCCAAGAAGTATACCACTCCCATTAGACATGGGAGTGTGACTTACTATGGTCCGTTCATATTTGCAGATGACCACGTTGGAGGGAAAGGCCACCGCGAGAAGCTAGGGGCACTATGTGGATTCCTCCAGTCTGGACCTTACGGGCAGGCGAAGGACTACTACAATCGTGCTGTCGAAGAAGAGATAGGCATTCCCCCAAGGGACCCGAAGCGCAGATCTGGAACCTCCTCTGTCCGACCTTGGTAGACCGAAAGGACCGACTCAGGTTTGAGACCACACTCCCATTAGATAGAAAAAAATGGCACATTTGTGCACACAACAAGCTAGACCCACAATGGAATGGAATACTTTTTTCTTGGTGATCTTGATCATCATCATAAAGAGCACCACACCACAGATCACTCAACGACCTCCGGTCGAAAACATCTCGACGTACCATGCAGATTGGGACACTCCGCTCTACACTCATCCCTCCAACTGCAGGGAAGATTCCTTTGTCCCGATTCGACCAGCTCAACTCAGGTGTCCTCATGAATTTGAAGACATAAACAAGGGACTGGTCTCCGTCCCAACTCAGATCATCCATCTCCCGCTATCAGTCACCAGCGTCTCCGCAGTAGCGAGTGGCCACTACCTGCACAGAGTGACTTATCGAGTCACCTGTTCGACCAGCTTCTTTGGAGGACAAACCATCGAAAAGACCATCTTGGAGGCGAAATTGTCTCGTCAGGAGGCCACAAACGAGGCAAGCAAGGATCACGAGTACCCGTTCTTCCCTGAACCCTCCTGCATCTGGATGAAAAACAATGTCCATAAGGACATAACTCACTATTACAAGACCCCAAAAACAGTATCGGTGGATCTCTACAGCAGGAAATTTCTCAACCCTGATTTCATAGAGGGGGTTTGCACAACCTCGCCCTGTCAAACTCATTGGCAGGGAGTCTATTGGGTCGGTGCCACACCTAAAGCCCATTGCCCCACGTCGGAAACACTAGGGGGACACCTGTTCACCAGGACCCATGATCACAGGGTGGTCAAGGCAATTGTGGCAGGCCATCATCCCTGGGGACTCACAATGGCATGCACAGTGACATTCTGCGGGACAGACTGGATCAAGACCGACCTGGGGGACCTGATCAAGGTGACAGGACCGGGGGGCGCGAGGAAACTGACTCCAAAAAAGTGTGTCAATGCCGACATCCAGATGAGGGGGGCAACAGACGACTTTTCTTATCTCAACCATCTCATCACCAACATGGCTCAAAGAACCGAGTGCCTAGATGCCCATAGTGATATCACCGCTTCTGGGAAAATATCCTCATTTCTCCTCTCAAAGTTTCGTCCCAGCCACCCTGGACCCGGCAAGGCACACTATCTTCTCGACGGTCAAATCATGCGAGGTGACTGTGACTATGAGGCAGTAGTCAGCATCAACTACAATAGCGCTCAATACAAGACGGTGAACAACACATGGAAATCATGGAAACGGGTAGACAACAACACAGACGGGTACGATGGGATGATATTTGGGGACAAATTGATCATCCCGGACATCGAGAAGTATCAGAGTGTCTATGACAGTGGAATGCTCGTTCAAAGAAACCTTGTGGAAGTCCCTCATCTGAGCATTGTGTTTGTCTCCAACACATCCGATCTTTCCACTAATCACATCCAAACCAACCTAATCCCTTCGGATTGGTCATTCAACTGGAGTCTTTGGCCATCATTATCTGGGATGGGGGTTGTGGGAGGGGCCCTCTCTCTACTGGTACTCTGCTGTTGCTGCAAGGCGTCCCCTCCTATTCCAAATTACGGGATTCCGATGCAGCAGTTCTCCAGAAGTCAGACGGTCTGAGCACACCTGTCCGAATGACCACAATTCTTCTCTTAGGTAGATAGAAAAAAATGGCACCTTTATGATAAAGAAACATGGCGACCCAACCCGCGCTCAGCACAACCAGCTTCTCTCCGCTCGTCCTCCGCGAGATGATCACATACAGACTCAAATTCGACCCAAGCAACTATCTCAACTGTGACCTTGATCGGTCGGACATATCCTCCATGGACTTCTTTGAAACGACCCTCCCCAGGATCCTAGATGATCTGAGGGCCAGTACACGGCTTCCCTACCTCCATGTGCTTGACATGAGGATAAGTCTCCTAGAGAGAACCCACTACATGTTCAGGAACGTCCCCTCTAGTCCCGCCACAACCGGTAGGCTGACAGATCCTGGACTCATCATTATTTCACATGCGGAGGTGGGGATATTGACAAGTGGCTCTGGGCTCACCTCCTGAACCTACCCGCCGTCTCTCAGATAGAAAAAAATGGCACTTTTGTTGTTTGTAATCCTACACTCAACAAAAAGTGACCCTACAGGGGGTAATACCTGACAAAACAAAGTTAGATCGCCTTACAGCAACCATGGAAATGTTTGAACTAGACCGGGAAGTACACCAGGAACGACTTCCTTCGGAATGTTCACTCAACTCTCCCCTAAACCTCTCCCTATCCCTCCAGCTCTTCGGGCGCTTGGCTCCTAAGACAGAGCACATCAGGTACCAAGCTGGGAGGATCAAGAGATGGCTCGCCAGACAGTACCAGCTGGTGCACCTCAGAGAGCTTGAGATTGACTCAACAAGAATCCAAGGATACCTGATCCCCCATCTTCTGAAGACACAGAGCAATGAGTTAGGATCGTCGGTGATGAAAAACTGGGGGATGGTCTCCAAGTACTACCTATCCCTGGGTTACACCCTTCCTCCAAAGGACAAGTTCGAGTTTCGAGAAGTTGCTCCTTACTGGAACTTGGCCTCACAGCTGAGAGAGGTCACCTTAGAGAGCCAGAAGGTGGACGCCAGAGGGAAAGGAAAAAGAAAGTTGTACCAGGTGGAGGATGTAGAGTTCGAATTTAAAGAGGGGGTGGTGGTGATTCGTGCGGGTCCGGATGGACTCCTGAATGAGTTCCTGGGGGGGGCAAAGCTTGGGGCAGTAACATATGTGGAGTACTTGGCCCTCTTCAAAATCATCAACCAAAGAGCACAAGCACTCCTGCTCACGGCCATCTGCCAGACCCTTGAACCCGATCTAGTTCCCCCCTGTAGTGGAATACTCTCTGTCTATACAGAGGTCGACTCCGTGCTCCGTCGGGCGGGACAATCCGCTATTGACTTGCTCAAATTGTGGGAACCTCTTGTTCTTACAAAACTGGGGGACGTGCTCGGCGACAGATTCGGCCTTGAGGACGACTTCAAAGATACAATTAGGGGAGAGGCGAACAAATTGGCCAAGAGACTACATGTCACCAGATCCTATGAACGGATGATGAGGACTCTAGATCAGGAGACTAGGGCACAGGCTCTCTTCCAATATTTTGGACTGTTCAAACATTTCGCGTACCCCCGCGTCTATTCGAGAGAAACCATTGAGGCAATTCAAGAGGTCAGTGACAAACCAAGCGACTCATCTCCACTCAATTACCTAAGTGATCAATGCAAGATCAGGGAAGAATTCTACATCCGATACACCAAGGCCTATCACAGGGCACCAGCCATGAATCTGGGTCAACTAGGACAGGGTTCCTATCTACGCCAGGTTTTGGAAGCAGGAAAGATCCCCAACACCAAGAATGCCCTTTACTCACTCCTAGAGTGGTTCTTTGTTCGTTTTGAGAAGAGCATCGAGTGGCCACTTAGTGACACCCTATCTACCTTCCTCTCCGACAAGGCGATCACCCAAAATAGGGACATCTGGTACGACGGGGGATCATCAGGAAGAGACACCACAGAAAAGAGACTACTTCTGAAGTTCATCAAGGAGAATGAAGACAGTGTGGAAAAGGTGATCCTCAAGGCCGATGAAATCTACGACAAAAAGGCAGATCAGATCATTGCACTGAAAGTCAAGGAGATGGAACTCAAAATCAAAGGTAGAGGATTTGGCTTGATGGCTTTTAAGCCAAGACTTCTTCAGGTTCTCCGAGAGAGCATCGCCAAAAAGACCAGTAAATTATTCCCAGAAATAACCATGACCTTCTCAGACCTCGAGTTGAAGAAGAAAAAATTTCAACTTTCAAGGAAGAGTGATGACAGGAGGGGATACATCCATATCAGCAAAAGTCTCGATATAAACAAGTTTTGCACCAGTCAACGCCAGTTCAACTCCCTGGCGGTTTTCCAGAGTCTAGATGAACTTCTGGGGACGGATCAGCTCTTCACGAGAGTGCACGAGATCTTCGAAAAAACATGGATTGTGGACGGATCCGCCAGTGACCCCCCAGATCTGGTGACGTTCAAGGCCAGGTATGAAGAGGCACTGGCCCTAGGGATAGAGGCCCCGCACGTATGGGCAGATGGAGCATTCTCCGGACTGATGGGTGGAATTGAGGGTCTCTGTCAGTACGTCTGGACAATCTGTCTATTGCTCAGGGTGGAACGTGTCCTCGCAGTGACACAACTGACCCATTTTGTCATGGCGCAAGGAGACAACGTGATCATCAACCTCATCATCCCTGTTGAGGTGGACCGGGTGGGTGGGGTTGTCGAAGGAGAACGCGCCAGAATTCAACACATCAGCAAAGACATCGATTCTGCTCTCGAACGAGAGCTGCTGAGGAGTGGCCTGACTCTTAAGATAGAAGAGACCCTGACCAGTGAAAACCTCTCAATCTATGGAAAAGACCTCCATTGCCCACAACACCTTACCCTTGCTGTGAAGAAGGCAGGATCCGCCTCCATCATATCAAGCGAACAATATCAGGACGTACCCACATTTCTTTCAGGCCTAGGAACGGGAATGGAAACAATCTCAGAGTGTGTCAACAACAAGGTGAGTGCTCATTTGTTCGGGGTCATTCTGGGAGCGGCTGGATGGAAGAGCCTCGCACAGAGACAAACGTGGAAAGGGTGGGAATACCCCTTTCAGAATGAGGCCACCCGGAGACAGGTCAGGTCGCAGGGAATCCTTCTTCAGAAGGGGGAGTCCACAATGGTCCACAAGGAGCCCGAGGTCAACCCAGAAAAACGGACCATAGAACTACTCCTGGTGAGCAGTCTCTTCGGGTCAGCTCTGGGGATGCTCCCCTTTCCCACTCCCATTGACCTCGAGAAAAGAGGTGTGGGAGACTACGTTACTCACCGGCTCTCGATCATCAAGATGGCCCTGGTCTCTAAAAAACTCCCAAACAGGATGGTCGAGATGATTGTCTCCACCATGAACCTTCCTCTTTCCCGAGAACAGGATCTCACGAAATTATTCGATTCCCCATTCTCCCTCAATCTTGCCACAGAGGAAGACGCAGCATCTGTGATCAAGAGACTCGCAAGGGGCACATTGAGGGGGCTCGACATCAAAAACAAAAAACTGGCAGATCACATAGCCACCATGGATCAGGGAATAACCCAAATTGACGACGCACTGGCCAGTGCAGACACAATCAACCCCCGAATTGCCTACCAATTTCGAAACATCACAGATCAGAAAGAGTCCGAAATGTTCGTCACCAAATTCGCCACCGCGAAAACCATGCGAATGGTTGCCCTCTCTTCGTCCCAGGATGTCTCAGTTGTGGGACTTTTGAACAAGCGCAGCCAGGCAAAGGAGATCTACACCATTTGGCGGACACAGAGGAAGGGGGAGACACTCTGGACATGCTCGACTCAACAGGCAAAGAAGCTCAGGGATCTATCTTGGGGGAAAAACATAATTGGGGTCACCTCTCCTTCTCCTCTGGAAGCCACCCGCTTCAAACTAATTGACCCAATCTCATGGGAGGAAGAAAAAGAGGCACACCACTTCACCATCCATTACTACCTCTCAAAACCCAGTCTTTCTTCAAAGACAGCCCACACAACCAGGGGTCCATTAGTTCCCTACTTCGGGACCCAGACCAAGCCACTGATCGCAAAAGCCTACATGGAGCTCAAGGGAAACCCCAGGACCAACAAGGCTCTGCAGTTGCTCAGCATGAGGGAGACCATGATTAAGGCAGGGTCCAATCTAGACAAACTCCTCTTGTCCCTGTGTTCCAATGCTCTAGATATCGACGTCAACTCCCTCCCCTCACTTCAAGCACAAGAGGAGGCCAGCGCCGGGGAGGGGGTCCGAGGGGGCATCAAAGAGTCCATGTCCCCAGTTGGACCGGACAATCTCTATACACACCTCACCCACAAGGTGTTCGAGCGCCAGTGGTTGTCTGAGTTTCATGTAAACATCGCGGACTTCATCATCTGGGGAATCACAAAGACTCGGCAGCATCTCCAGGTTGACACCGACCTGGGTGGGAGTCTTCCGATCTGTGTCCCAGCGTGTCCAGAGTGTTACAGAGAGAAAGAACGGGTCTTCTTGGACATCCCAAAGGAAACGGAGTGGGTCAATACCTCCACTACCTCAGACAAGGCCCAAACCTACTTCTCCACCTGGTGTGATCTCCCAAGAGTGTCCACCCTCCCCTCATTAGACCAGAAGGATGCAACTTGTCTGATGGGGAGGTCCATGGCAACTCAAAAATCCACCCCGGGAGAATCCATCACCAAGTTCTATAGCACAGCCCCAGACACCCATAGACTTCTCCATCCTGTGACCTTGGTCCTGGGCTATGCGGAGGGAACAATTTTTTCCTACATGAAAAGTCAGCACAACATTCATGGGTCTCTTTACCATCCGCAGATCGATGAGATCGAACCAGCTCTTGAAAAGTATGTGATCGACACGAAGACATCCCACACCAAACACCTGGGATATCTGTTTCAAGATGCCGACTCCCTCCAGGAACTCCTAGAGACAGGAATGACACCATATATCCCTAGATCCATTCCTCTCACGATCACTGAATTGACAAGTGCCTGCTGCATGACACTTGCCAAAGCAATCTCCATTGTTCTCAGAACTGGAGTGACCATCCCATTGATGCCAGAAAATGGATACGGAGAAAACGATATCCAAGTGGCAAGACTCACCGCCAACTCCTTCTCTCGACTCATGCCCAGGGGGAGGATTCAGCTAGTCTACTTGGACTGTGACCTGACCTCACAGATGACCGCGTGGGTGCCAACCAGCCAGCCGAGTGTCTTGGGATCCGTCAACTTCCACATCGAGGGAATTGCCATCCCCCTCACAGCGACAGAGATGAGAGTAGGACAAGAAAGTTGGGAAGAGAGAAAGTGGACATGCTCAAACAATCGACACATCATCGCAAAGGGGGTCAAGACCAAATCTCTGTTCATACACCAAAGCGTCCCCGAGATCATCACACACCCTCCCGATCTCATTGTGGTGATCGGAGGAGGCCTAGGGGGCTGTGTGGTTCCCTATCTTCAAAAGTGGAGGGACCCCAAAGTGATCTTCTGCACTCTCTTTGATGAACGAGAGCGGATCTCGGAGGACGGAGACTTGATCATTCCCCCGGAGCTCCTGGTTCGAGGACTTGCTGGGAGAATGGTCGAGAAAGAACTCCTGGAGGCCGAAATGTGCGACATCACGATCAAGGGAAACAGGGACCTCCTCATCAAAGTTGTGCAGAAATGGGTTCAGCCGAACGAACATGTCCTTCTCATTGATGAGATCGAAAATCGGGGGGATCAAGAGTCAGTACTTCAATCTTCCATCAGTGAGCTTCTGAAAAGAATGGATAGCGTGTGCAACCTCACCTCTGTTCACACCATCCGGGAGACCGGACCCCGACAATTCGCCCAGAGGGTAAACACAATTAGGAGAGGAAGAAAGACAGCAACACTCCACTGGAACCAGTACAACCGACGAGACCAAGTGGAGGCCCTTTTACTTATTGAGAGCCACACCAGAAAGACCGAATTGCACGTCACATCATCTGTTGTACAGGCAGCATTCAGGAAGATCGACGAGAAGCTCGAGTCGGAGAGTCGACTTGAACACAGTAAATGGTCACTCCCTGAGCTCCCCCCAAGGGAGAAGGACATCCTACTTGGATATGTGGCGTCTGTCTTTCTAAAGCTGGGGCTGGTTGTGACAGACAGACACATGTCGGCTGCCGCGCTCATCACTCTTCTTGAAGAAGCTGGGCCAAAGATGATATCCTGGGACAAGAAGATGGAACATCGGACCTGGGCCTCCTCGGATGCCATTACCGAGAAGGGGGTCACCCAGGACCAGATCTTTTCTCTTCTCTGCTTTGCATGGGCCCTTAGGGGACTAAAATCAGGAGACTGGGAACACAACGCAGACGCCATCATCCTCCAGGATGTCCACATTGACACAGGTCCGAGGCTCTGTCAGATGGGCGAGTCTCCCAAGAGGACATTTGCATCCTTCAGGTTGCACAACACCAAAAAAGCGGAGGATCTCAAGGGGTACCTAGGTGCTCTGCTCCACCTGGAGTCCTTCTTTCCATTTGGAGAACAGTGATGG

Position of first base pair in reference sequence

Position of last base pair in reference sequence

Selected sequence

Percentage match required

Location on first sequence (-I)
Location on second sequence (-J)
Expect: upper bound on the expected frequency of chance occurrence of a set of HSPs (-e)

Selectivity options

Expect: upper bound on the expected frequency of chance occurrence of a set of HSPs (-e)

The statistical significance threshold for reporting matches against database sequences; the default value is 10, such that 10 matches are expected to be found merely by chance, according to the stochastic model of Karlin and Altschul (1990). If the statistical significance ascribed to a match is greater than the EXPECT threshold, the match will not be reported. Lower EXPECT thresholds are more stringent, leading to fewer chance matches being reported. Fractional values are acceptable.

Selectivity options

X dropoff value for gapped alignment (in bits) (-X)

This is the value that control the path graph region explored by Blast during a gapped extension (Xg in the NAR paper) (default for blastp is 15).

Cost to open a gap (-G)

default is 5 for blastn, 10 for blastp

Cost to extend a gap (-E)

default is 2 for blastn, 1 for blastp

Limited values for gap existence and extension are supported for these three programs. Some supported and suggested values are:

Existence Extension

10 1

10 2

11 1

8 2

9 2

Sequence format

The sequence will be automatically converted in the format needed for the program

providing you enter a sequence either:

in plain (raw) sequence format or in one of the following known formats:

IG,GenBank,NBRF,EMBL,GCG,DNAStrider,Fitch,fasta,Phylip,PIR,MSF,ASN,PAUP,CLUSTALW

You may enter in the text area a database entry code, or an accession number, in this form:
database:entry_name
or:
database:accession.