diff --git a/phylogenetic/Snakefile b/phylogenetic/Snakefile
index a2263e5..483e5ef 100644
--- a/phylogenetic/Snakefile
+++ b/phylogenetic/Snakefile
@@ -1,6 +1,6 @@
 configfile: "defaults/config_zika.yaml"
 
-genes = ['genome', 'ENV']
+genes = ['genome', 'ENV', 'CA', 'PRO', 'MP', 'NS1', 'NS2A', 'NS2B', 'NS3', 'NS4A', '2K', 'NS4B', 'NS5']
 
 wildcard_constraints:
     gene = "|".join(genes)
diff --git a/phylogenetic/defaults/config_zika.yaml b/phylogenetic/defaults/config_zika.yaml
index 7a08ec9..35614e7 100644
--- a/phylogenetic/defaults/config_zika.yaml
+++ b/phylogenetic/defaults/config_zika.yaml
@@ -13,6 +13,17 @@ filter:
   min_length:
     genome: 5385
     ENV: 1000
+    CA: 120
+    PRO: 90
+    MP: 70
+    NS1: 350
+    NS2A: 220
+    NS2B: 130
+    NS3: 610
+    NS4A: 120
+    2K: 23
+    NS4B: 250
+    NS5: 903
 
 refine:
   coalescent: "opt"