core: Add Q493R mutation call

Signed-off-by: Kai Blin <[email protected]>
kblin · Dec 9, 2021 · 9b56ac0 · 9b56ac0
1 parent be2a2b2
commit 9b56ac0
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Showing 3 changed files with 22 additions and 1 deletion.
diff --git a/covid_spike_classification/core.py b/covid_spike_classification/core.py
@@ -30,6 +30,7 @@
     "E484Q": "NC_045512:23012-23014",
     "F490R": "NC_045512:23030-23032",
     "Q493K": "NC_045512:23039-23041",
+    "Q493R": "NC_045512:23039-23041",
     "G496S": "NC_045512:23048-23050",
     "Q498R": "NC_045512:23054-23056",
     "N501Y": "NC_045512:23063-23065",

diff --git a/tests/data/Q493R.fasta b/tests/data/Q493R.fasta
@@ -0,0 +1,19 @@
+>Q493R
+GGGCAAACTGGAAAGATTGCTGATTATAATTATAAATTACCAGATGATTTTACAGGCTGC
+GTTATAGCTTGGAATTCTAACAATCTTGATTCTAAGGTTGGTGGTAATTATAATTACCTG
+TATAGATTGTTTAGGAAGTCTAATCTCAAACCTTTTGAGAGAGATATTTCAACTGAAATC
+TATCAGGCCGGTAGCACACCTTGTAATGGTGTTGAAGGTTTTAATTGTTACTTTCCTTTA
+CGATCATATGGTTTCCAACCCACTAATGGTGTTGGTTACCAACCATACAGAGTAGTAGTA
+CTTTCTTTTGAACTTCTACATGCACCAGCAACTGTTTGTGGACCTAAAAAGTCTACTAAT
+TTGGTTAAAAACAAATGTGTCAATTTCAACTTCAATGGTTTAACAGGCACAGGTGTTCTT
+ACTGAGTCTAACAAAAAGTTTCTGCCTTTCCAACAATTTGGCAGAGACATTGCTGACACT
+ACTGATGCTGTCCGTGATCCACAGACACTTGAGATTCTTGACATTACACCATGTTCTTTT
+GGTGGTGTCAGTGTTATAACACCAGGAACAAATACTTCTAACCAGGTTGCTGTTCTTTAT
+CAGGATGTTAACTGCACAGAAGTCCCTGTTGCTATTCATGCAGATCAACTTACTCCTACT
+TGGCGTGTTTATTCTACAGGTTCTAATGTTTTTCAAACACGTGCAGGCTGTTTAATAGGG
+GCTGAACATGTCAACAACTCATATGAGTGTGACATACCCATTGGTGCAGGTATATGCGCT
+AGTTATCAGACTCAGACTAATTCTCCTCGGCGGGCACGTAGTGTAGCTAGTCAATCCATC
+ATTGCCTACACTATGTCACTTGGTGCAGAAAATTCAGTTGCTTACTCTAATAACTCTATT
+GCCATACCCACAAATTTTACTATTAGTGTTACCACAGAAATTCTACCAGTGTCTATGACC
+AAGACATCAGTAGATTGTACAATGTACATTTGTGGTGATTCAACTGAATGCAGCAATCTT
+TTGTTGCAATATGGCAGTTTTTGTACACA
diff --git a/tests/data/generate_test_data.sh b/tests/data/generate_test_data.sh
@@ -44,6 +44,8 @@ generate E484Q 23012:C
 generate F490R 23030:C 23031:G
 #Q493K
 generate Q493K 23039:A
+#Q493R
+generate Q493R 23040:G
 #G496S
 generate G496S 23048:A
 #Q498R
@@ -80,4 +82,3 @@ generate A701V 23664:T
 generate T716I 23709:T
 #T732A
 generate T732A 23756:G
-