diff --git a/Snakefile b/Snakefile
index d324ded..56dab5a 100644
--- a/Snakefile
+++ b/Snakefile
@@ -1,3 +1,6 @@
+if not config:
+    configfile: "config/config_zika.yaml"
+
 rule all:
     input:
         auspice_json = "auspice/zika.json",
@@ -17,10 +20,10 @@ rule download:
     message: "Downloading sequences and metadata from data.nextstrain.org"
     output:
         sequences = "data/sequences.fasta.zst",
-        metadata = "data/metadata.tsv.zst"
+        metadata = "data/metadata.tsv.zst",
     params:
-        sequences_url = "https://data.nextstrain.org/files/zika/sequences.fasta.zst",
-        metadata_url = "https://data.nextstrain.org/files/zika/metadata.tsv.zst"
+        sequences_url = "https://data.nextstrain.org/files/workflows/zika/sequences_all.fasta.zst",
+        metadata_url = "https://data.nextstrain.org/files/workflows/zika/metadata_all.tsv.zst"
     shell:
         """
         curl -fsSL --compressed {params.sequences_url:q} --output {output.sequences}
@@ -30,8 +33,8 @@ rule download:
 rule decompress:
     message: "Decompressing sequences and metadata"
     input:
-        sequences = "data/sequences.fasta.zst",
-        metadata = "data/metadata.tsv.zst"
+        sequences = "data/sequences_all.fasta.zst",
+        metadata = "data/metadata_all.tsv.zst"
     output:
         sequences = "data/sequences.fasta",
         metadata = "data/metadata.tsv"
@@ -41,6 +44,20 @@ rule decompress:
         zstd -d -c {input.metadata} > {output.metadata}
         """
 
+rule wrangle_metadata:
+    input:
+        metadata="data/metadata.tsv"
+    output:
+        metadata="results/wrangled_metadata.tsv",
+    params:
+        strain_id=lambda w: config.get("strain_id_field", "strain"),
+    shell:
+        """
+        csvtk -t rename -f strain -n strain_original {input.metadata} \
+          | csvtk -t mutate -f {params.strain_id} -n strain > {output.metadata}
+        """
+
+
 rule filter:
     message:
         """
@@ -51,8 +68,8 @@ rule filter:
           - minimum genome length of {params.min_length} (50% of Zika virus genome)
         """
     input:
-        sequences = rules.decompress.output.sequences,
-        metadata = rules.decompress.output.metadata,
+        sequences = "data/sequences.fasta",
+        metadata = rules.wrangle_metadata.output.metadata,
         exclude = files.dropped_strains
     output:
         sequences = "results/filtered.fasta"
@@ -120,7 +137,7 @@ rule refine:
     input:
         tree = rules.tree.output.tree,
         alignment = rules.align.output,
-        metadata = rules.decompress.output.metadata
+        metadata = rules.wrangle_metadata.output.metadata
     output:
         tree = "results/tree.nwk",
         node_data = "results/branch_lengths.json"
@@ -186,7 +203,7 @@ rule traits:
         """
     input:
         tree = rules.refine.output.tree,
-        metadata = rules.decompress.output.metadata
+        metadata = rules.wrangle_metadata.output.metadata
     output:
         node_data = "results/traits.json",
     params:
@@ -207,7 +224,7 @@ rule export:
     message: "Exporting data files for for auspice"
     input:
         tree = rules.refine.output.tree,
-        metadata = rules.decompress.output.metadata,
+        metadata = rules.wrangle_metadata.output.metadata,
         branch_lengths = rules.refine.output.node_data,
         traits = rules.traits.output.node_data,
         nt_muts = rules.ancestral.output.node_data,
@@ -216,7 +233,8 @@ rule export:
         auspice_config = files.auspice_config,
         description = files.description
     output:
-        auspice_json = rules.all.input.auspice_json
+        auspice_json = "results/raw_zika.json",
+        root_sequence = "results/raw_zika_root-sequence.json",
     shell:
         """
         augur export v2 \
@@ -230,6 +248,27 @@ rule export:
             --output {output.auspice_json}
         """
 
+rule final_strain_name:
+    input:
+        auspice_json=rules.export.output.auspice_json,
+        metadata=rules.wrangle_metadata.output.metadata,
+        root_sequence=rules.export.output.root_sequence,
+    output:
+        auspice_json=rules.all.input.auspice_json,
+        root_sequence="auspice/zika_root-sequence.json",
+    params:
+        display_strain_field=lambda w: config.get("display_strain_field", "strain"),
+    shell:
+        """
+        python3 bin/set_final_strain_name.py \
+            --metadata {input.metadata} \
+            --input-auspice-json {input.auspice_json} \
+            --display-strain-name {params.display_strain_field} \
+            --output {output.auspice_json}
+
+        cp {input.root_sequence} {output.root_sequence}
+        """
+
 rule clean:
     message: "Removing directories: {params}"
     params:
diff --git a/bin/set_final_strain_name.py b/bin/set_final_strain_name.py
new file mode 100755
index 0000000..0036f2a
--- /dev/null
+++ b/bin/set_final_strain_name.py
@@ -0,0 +1,36 @@
+import pandas as pd
+import json, argparse
+
+def replace_name_recursive(node, lookup):
+    if node["name"] in lookup:
+        node["name"] = lookup[node["name"]]
+
+    if "children" in node:
+        for child in node["children"]:
+            replace_name_recursive(child, lookup)
+
+if __name__=="__main__":
+    parser = argparse.ArgumentParser(
+        description="Swaps out the strain names in the Auspice JSON with the final strain name",
+        formatter_class=argparse.ArgumentDefaultsHelpFormatter
+    )
+
+    parser.add_argument('--input-auspice-json', type=str, required=True, help="input auspice_json")
+    parser.add_argument('--metadata', type=str, required=True, help="input data")
+    parser.add_argument('--display-strain-name', type=str, required=True, help="field to use as strain name in auspice")
+    parser.add_argument('--output', type=str, metavar="JSON", required=True, help="output Auspice JSON")
+    args = parser.parse_args()
+
+    metadata = pd.read_csv(args.metadata, sep='\t')
+    name_lookup = {}
+    for ri, row in metadata.iterrows():
+        strain_id = row['strain']
+        name_lookup[strain_id] = args.display_strain_name if pd.isna(row[args.display_strain_name]) else row[args.display_strain_name]
+
+    with open(args.input_auspice_json, 'r') as fh:
+        data = json.load(fh)
+
+    replace_name_recursive(data['tree'], name_lookup)
+
+    with open(args.output, 'w') as fh:
+        json.dump(data, fh)
diff --git a/config/auspice_config.json b/config/auspice_config.json
index b3ba0c8..be302f4 100644
--- a/config/auspice_config.json
+++ b/config/auspice_config.json
@@ -5,6 +5,11 @@
   ],
   "build_url": "https://github.com/nextstrain/zika",
   "colorings": [
+    {
+      "key": "strain_original",
+      "title": "strain name",
+      "type": "categorical"
+    },
     {
       "key": "gt",
       "title": "genotype",
diff --git a/config/config_zika.yaml b/config/config_zika.yaml
new file mode 100644
index 0000000..aa8d020
--- /dev/null
+++ b/config/config_zika.yaml
@@ -0,0 +1,2 @@
+strain_id_field: "accession"
+display_strain_field: "strain_original"
\ No newline at end of file
diff --git a/config/dropped_strains.txt b/config/dropped_strains.txt
index 22b5878..746e1ba 100644
--- a/config/dropped_strains.txt
+++ b/config/dropped_strains.txt
@@ -1,86 +1,87 @@
-PF13/251013_18 # reference included in config/zika_reference.gb
-AFMC_U # too basal
-AFMC_S # too basal
-Boracay/16423 # too basal
-JMB_185 # too basal
-PHL/2012/CPC_0740 # too basal
+MG827392
+KX369547 # PF13/251013_18 # reference included in config/zika_reference.gb
+KY553111 # AFMC_U # too basal
+KY962729 # AFMC_S # too basal
+KY120353 # Boracay/16423 # too basal
+KU179098 # JMB_185 # too basal
+KU681082 # PHL/2012/CPC_0740 # too basal
 VIE/Bra/2016 # too basal
-Dominican_Republic/2016/PD2 # duplicate of other strain in dataset
-GD01 # duplicate of other strain in dataset
-GDZ16001 # duplicate of other strain in dataset
-VEN/UF_2/2016 # duplicate of other strain in dataset
-ZZ_1 # duplicate of other strain in dataset
-VR10599/Pavia/2016 # export with unknown origin
-34997/Pavia/2016 # export with unknown origin
-COL/FLR_00001/2015 # duplicate of COL/FLR/2015
-COL/FLR_00002/2015 # duplicate of COL/FLR/2015
-COL/FLR_00003/2015 # duplicate of COL/FLR/2015
-COL/FLR_00004/2015 # duplicate of COL/FLR/2015
-COL/FLR_00005/2015 # duplicate of COL/FLR/2015
-COL/FLR_00006/2015 # duplicate of COL/FLR/2015
-COL/FLR_00007/2015 # duplicate of COL/FLR/2015
-COL/FLR_00008/2015 # duplicate of COL/FLR/2015
-COL/FLR_00009/2015 # duplicate of COL/FLR/2015
-COL/FLR_00010/2015 # duplicate of COL/FLR/2015
-COL/FLR_00011/2015 # duplicate of COL/FLR/2015
-COL/FLR_00012/2015 # duplicate of COL/FLR/2015
-COL/FLR_00013/2015 # duplicate of COL/FLR/2015
-COL/FLR_00014/2015 # duplicate of COL/FLR/2015
-COL/FLR_00015/2015 # duplicate of COL/FLR/2015
-COL/FLR_00016/2015 # duplicate of COL/FLR/2015
-COL/FLR_00017/2015 # duplicate of COL/FLR/2015
-COL/FLR_00018/2015 # duplicate of COL/FLR/2015
-COL/FLR_00019/2015 # duplicate of COL/FLR/2015
-COL/FLR_00020/2015 # duplicate of COL/FLR/2015
-COL/FLR_00021/2015 # duplicate of COL/FLR/2015
-COL/FLR_00022/2015 # duplicate of COL/FLR/2015
-COL/FLR_00023/2015 # duplicate of COL/FLR/2015
-COL/FLR_00024/2015 # duplicate of COL/FLR/2015
-COL/FLR_00025/2015 # duplicate of COL/FLR/2015
-COL/FLR_00026/2015 # duplicate of COL/FLR/2015
-COL/FLR_00034/2015 # duplicate of COL/FLR/2015
-COL/FLR_00035/2015 # duplicate of COL/FLR/2015
-COL/FLR_00036/2015 # duplicate of COL/FLR/2015
-COL/FLR_00038/2015 # duplicate of COL/FLR/2015
-COL/FLR_00040/2015 # duplicate of COL/FLR/2015
-COL/FLR_00041/2015 # duplicate of COL/FLR/2015
-COL/FLR_00042/2015 # duplicate of COL/FLR/2015
-COL/PRV_00027/2015 # misdated
-COL/PRV_00028/2015 # misdated
-COL/PAN_00029/2015 # misdated
-COL/PAN_00030/2015 # misdated
-BRA/2016/FC_DQ12D1 # large indel
-Brazil/2016/ZBRX8 # large indel
-Brazil/2016/ZBRX11 # large indel
-CX17 # large indel
-MEX/2016/mex27 # large indel
-MEX/2016/mex50 # large indel
-SLV/2016/ElSalvador_1055 # large indel
-USVI/20/2016 # large indel
+KU853013 # Dominican_Republic/2016/PD2 # duplicate of other strain in dataset
+KU740184 # GD01 # duplicate of other strain in dataset
+KU761564 # GDZ16001 # duplicate of other strain in dataset
+KX893855 # VEN/UF_2/2016 # duplicate of other strain in dataset
+KY927808 # ZZ_1 # duplicate of other strain in dataset
+KY003154 # VR10599/Pavia/2016 # export with unknown origin
+KY003153 # 34997/Pavia/2016 # export with unknown origin
+MF574552 # COL/FLR_00001/2015 # duplicate of COL/FLR/2015
+MF574559 # COL/FLR_00002/2015 # duplicate of COL/FLR/2015
+MF574560 # COL/FLR_00003/2015 # duplicate of COL/FLR/2015
+MF574561 # COL/FLR_00004/2015 # duplicate of COL/FLR/2015
+MF574571 # COL/FLR_00005/2015 # duplicate of COL/FLR/2015
+MF574555 # COL/FLR_00006/2015 # duplicate of COL/FLR/2015
+MF574557 # COL/FLR_00007/2015 # duplicate of COL/FLR/2015
+MF574562 # COL/FLR_00008/2015 # duplicate of COL/FLR/2015
+MF574572 # COL/FLR_00009/2015 # duplicate of COL/FLR/2015
+MF574570 # COL/FLR_00010/2015 # duplicate of COL/FLR/2015
+MF574565 # COL/FLR_00011/2015 # duplicate of COL/FLR/2015
+MF574568 # COL/FLR_00012/2015 # duplicate of COL/FLR/2015
+MF574558 # COL/FLR_00013/2015 # duplicate of COL/FLR/2015
+MF574576 # COL/FLR_00014/2015 # duplicate of COL/FLR/2015
+MF574567 # COL/FLR_00015/2015 # duplicate of COL/FLR/2015
+MF574575 # COL/FLR_00016/2015 # duplicate of COL/FLR/2015
+MF574553 # COL/FLR_00017/2015 # duplicate of COL/FLR/2015
+MF574573 # COL/FLR_00018/2015 # duplicate of COL/FLR/2015
+MF574574 # COL/FLR_00019/2015 # duplicate of COL/FLR/2015
+MF574577 # COL/FLR_00020/2015 # duplicate of COL/FLR/2015
+MF574556 # COL/FLR_00021/2015 # duplicate of COL/FLR/2015
+MF574554 # COL/FLR_00022/2015 # duplicate of COL/FLR/2015
+MF574566 # COL/FLR_00023/2015 # duplicate of COL/FLR/2015
+MF574569 # COL/FLR_00024/2015 # duplicate of COL/FLR/2015
+MF574563 # COL/FLR_00025/2015 # duplicate of COL/FLR/2015
+MF574564 # COL/FLR_00026/2015 # duplicate of COL/FLR/2015
+MF574581 # COL/FLR_00034/2015 # duplicate of COL/FLR/2015
+MF574588 # COL/FLR_00035/2015 # duplicate of COL/FLR/2015
+MF574582 # COL/FLR_00036/2015 # duplicate of COL/FLR/2015
+MF574586 # COL/FLR_00038/2015 # duplicate of COL/FLR/2015
+MF574584 # COL/FLR_00040/2015 # duplicate of COL/FLR/2015
+MF574583 # COL/FLR_00041/2015 # duplicate of COL/FLR/2015
+MF574580 # COL/FLR_00042/2015 # duplicate of COL/FLR/2015
+MF574579 # COL/PRV_00027/2015 # misdated
+MF574578 # COL/PRV_00028/2015 # misdated
+MF574585 # COL/PAN_00029/2015 # misdated
+MF574587 # COL/PAN_00030/2015 # misdated
+KY785436 # BRA/2016/FC_DQ12D1 # large indel
+KY559010 # Brazil/2016/ZBRX8 # large indel
+KY559011 # Brazil/2016/ZBRX11 # large indel
+KX986761 # CX17 # large indel
+MF801405 # MEX/2016/mex27 # large indel
+MF801424 # MEX/2016/mex50 # large indel
+MF801377 # SLV/2016/ElSalvador_1055 # large indel
+VI20_12plex # USVI/20/2016 # large indel
 USVI/21/2016 # large indel
-USVI/23/2016 # large indel
-USVI/27/2016 # large indel
-USVI/30/2016 # large indel
-USVI/32/2016 # large indel
-Thailand/1605aTw # excess divergence
-VE_Ganxian # excess divergence
-ZK_YN001 # excess divergence
-Haiti/0029/2014 # contamination present
-Haiti/0033/2014 # contamination present
-Haiti/0036/2014 # contamination present
-Haiti/0054/2014 # contamination present
-Haiti/0074/2014 # contamination present
-Haiti/0097/2014 # contamination present
-mosquito/Haiti/1682/2016 # contamination present
+VI23_12plex # USVI/23/2016 # large indel
+VI27_1d # USVI/27/2016 # large indel
+VI30_1d # USVI/30/2016 # large indel
+VI32_12plex # USVI/32/2016 # large indel
+KY126351 # Thailand/1605aTw # excess divergence
+KU744693 # VE_Ganxian # excess divergence
+KY328290 # ZK_YN001 # excess divergence
+KY415986 # Haiti/0029/2014 # contamination present
+KY415987 # Haiti/0033/2014 # contamination present
+KY415990 # Haiti/0036/2014 # contamination present
+KY415988 # Haiti/0054/2014 # contamination present
+KY415989 # Haiti/0074/2014 # contamination present
+KY415991 # Haiti/0097/2014 # contamination present
+MF384325 # mosquito/Haiti/1682/2016 # contamination present
 ZF36_36S # contamination present
-MR766 # lab strain
-Aedes_sp/MEX_I_44/2016 # duplicate of Aedes_aegypti/MEX/MEX_I_44/2016
-Puerto_Rico/2015/PRVABC59 # duplicate of PRVABC59
-V15555 # highly diverged
-DK # lab strain
-DK23 # lab strain
-rGZ02a/2018 # highly diverged
-rGZ02p/2018 # highly diverged
-V211784 # highly diverged
-LMM/AG5643
-Faranah/18
+MK105975 # MR766 # lab strain
+KX856011 # Aedes_sp/MEX_I_44/2016 # duplicate of Aedes_aegypti/MEX/MEX_I_44/2016
+MK028857 # Puerto_Rico/2015/PRVABC59 # duplicate of PRVABC59
+MN025403 # V15555 # highly diverged
+MT505349 # DK # lab strain
+MT505350 # DK23 # lab strain
+MW680969 # rGZ02a/2018 # highly diverged
+MW680970 # rGZ02p/2018 # highly diverged
+OK054351 # V211784 # highly diverged
+MT478034 # LMM/AG5643
+OL414716 # Faranah/18
diff --git a/example_data/sequences.fasta b/example_data/sequences.fasta
index 64facba..9203c90 100644
--- a/example_data/sequences.fasta
+++ b/example_data/sequences.fasta
@@ -1,4 +1,4 @@
->PAN/CDC_259359_V1_V3/2015
+>KX156774
 gaatttgaagcgaatgctaacaacagtatcaacaggttttattttggatttggaaacgag
 agtttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgc
 taaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggac
@@ -179,7 +179,7 @@ gaccttccccacccttcaatctggggcctgaactggagatcagctgtggatctccagaag
 agggactagtggttagaggagaccccccggaaaacgcaaaacagcatattgacgctggga
 aagaccagagactccatgagtttccaccacgctggccgccaggcacagatcgccgaatag
 cggcggccggtgtggggaaatccatgggtct
->COL/FLR_00024/2015
+>MF574569
 tcagactgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttatt
 ttggatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggatt
 ccggattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaa
@@ -358,7 +358,7 @@ agctgggaaaccaagcctatagtcaggccgagaacgccatggcacggaagaagccatgct
 gcctgtgagcccctcagaggacactgagtcaaaaaaccccacgcgcttggaggcgcagga
 tgggaaaagaaggtggcgaccttccccacccttcaatctggggcctgaactggagatcag
 ctgtggatctccagaagagggactagtggttagaggaga
->PRVABC59
+>KU501215
 gttgttgatctgtgtgaatcagactgcgacagttcgagtttgaagcgaaagctagcaaca
 gtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaaa
 aaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtgag
@@ -537,7 +537,7 @@ tgtgacccccccaggagaagctgggaaaccaagcctatagtcaggccgagaacgccatgg
 cacggaagaagccatgctgcctgtgagcccctcagaggacactgagtcaaaaaaccccac
 gcgcttggaggcgcaggatgggaaaagaaggtggcgaccttccccacccttcaatctggg
 gcctgaactggagatcagctgtggatctccagaagagggactagtggttagagga
->COL/FLR_00008/2015
+>MF574562
 tcagactgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttatt
 ttggatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggatt
 ccggattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaa
@@ -716,7 +716,7 @@ agctgggaaaccaagcctatagtcaggccgagaacgccatggcacggaagaagccatgct
 gcctgtgagcccctcagaggacactgagtcaaaaaaccccacgcgcttggaggcgcagga
 tgggaaaagaaggtggcgaccttccccacccttcaatctggggcctgaactggagatcag
 ctgtggatctccagaagagggactagtggttagaggaga
->Colombia/2016/ZC204Se
+>KY317939
 gacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttattttggatttg
 gaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgt
 caatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgcc
@@ -894,7 +894,7 @@ agtcagccacagcttggggaaagctgtgcagcctgtgacccccccaggagaagctgggaa
 accaagcctatagtcaggccgagaacgccatggcacggaagaagccatgctgcctgtgag
 cccctcagaggacactgagtcaaaaaaccccacgcgcttggaggcgcaggatgggaaaag
 aaggtggcgaccttccccacccttcaatctggggcctgaactggagat
->ZKC2/2016
+>KX253996
 agttgttgatctgtgtgaatcagactgcgacagttcgagtttgaagcgaaagctagcaac
 agtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaa
 aaaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtga
@@ -1076,7 +1076,7 @@ ggcctgaactggagatcagctgtggatctccagaagagggactagtggttagaggagacc
 ccccggaaaacgcaaaacagcatattgacgctgggaaagaccagagactccatgagtttc
 caccacgctggccgccaggcacagatcgccgaatagcggcggccggtgtggggaaatcca
 tgggtct
->VEN/UF_1/2016
+>KX702400
 agttgttactgttgctgactcagactgcgacagttcgagtttgaagcgaaagctagcaac
 agtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaa
 aaaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtga
@@ -1258,7 +1258,7 @@ ggcctgaactggagatcagctgtggatctccagaagagggactagtggttagaggagacc
 ccccggaaaacgcaaaacagcatattgacgctgggaaagaccagagactccatgagtttc
 caccacgctggccgccaggcacagatcgccgaatagcggcggccggtgtggggaaatcca
 tgggtctt
->DOM/2016/BB_0059
+>KY785425
 tggctgccatgctgagaataatcaatgctaggaaggagaagaagagacgaggcgcagata
 ctagtgtcggaattgttggcctcctgctgaccacagctatggcagcggaggtcactagac
 gtgggagtgcatactacatgtacttggacagaaacgatgctggggaggccatatctttcc
@@ -1427,7 +1427,7 @@ ggtgtggatctctcatagggcacagaccgcgcaccacctgggctgagaacattaaaaaca
 cagtcaacatggtgcgcaggatcataggtgaggaagaaaagtacatggactacctatcca
 cccaagttcgctacttgggtgaagaagggtctacacctggagtgctgtaagcaccaatct
 taatgttgtcaggcc
->BRA/2016/FC_6706
+>KY785433
 agtttgaagcgaaagctagcaacagtatcaacaggttttatttyggatttggaaacgaga
 gtttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgct
 aaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggact
@@ -1601,7 +1601,7 @@ cattccctatttgggaaaaagggaagacttgtggtgtggatctctcatagggcacagacc
 gcgcaccacctgggctgagaacattaaaaacacagtcaacatggtgcgcaggatcatagg
 tgatgaagaaaagtacatggactacctatccacccaagttcgctacttgggtgaagaagg
 gtctacacctggagtgctgtaagcaccaatcttaatgttgtcaggc
->DOM/2016/BB_0183
+>KY785420
 gtttgaagcgaaagctagcaacagtatcaacaggttttattttggatttggaaacgagag
 tttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgcta
 aaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggactt
@@ -1780,7 +1780,7 @@ tagtcaggccgagaacgccatggcacggaagaagccatgctgcctgtgagcccctcagag
 gacactgagtcaaaaaaccccacgcgcttggaggcgcaggatgggaaaagaaggtggcga
 ccttccccacccttcaatctggggcctgaactggagatcagctgtggatccccagaagag
 g
->EcEs062_16
+>KX879603
 agtagttgatctgtgtgaatcagactgcgacagttcgagtttgaagcgaaagctagcaac
 agtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaa
 aaaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtga
@@ -1962,7 +1962,7 @@ ggcctgaactggagatcagctgtggatctccagaagagggactagtggttagaggagacc
 ccccggaaaacgcaaaacagcatattgacgctgggaaagaccagagactccatgagtttc
 caccacgctggccgccaggcacagatcgccgaatagcggcggccggtgtggggaaatcca
 tgggagatcgga
->HND/2016/HU_ME59
+>KY785418
 gtttgaagcgaaagctagcaacagtatcaacaggttttattttggatttggaaacgagag
 tttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgcta
 aaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggactt
@@ -2136,7 +2136,7 @@ attccctatttgggaaaaagggaagacttgtggtgtggatctctcatagggcacagaccg
 cgcaccacctgggctgagaacattaaaaacacagtcaacatggtgcgcaggatcataggt
 gatgaagaaaagtacatggactacctatccacccaagttcgctacttgggtgaagaaggg
 tctacacctggagtgctgtaagcaccaatcttaatgttgtcaggc
->DOM/2016/MA_WGS16_011
+>KY785484
 aagcgaaagctagcaacagtatcaacaggttttattttggatttggaaacgagagtttct
 ggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgctaaaacg
 cggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggacttctgct
@@ -2314,7 +2314,7 @@ ggggaaagctgtgcagcctgtgacccccccaggagaagctgggaaaccaagcctatagtc
 aggccgagaacgccatggcacggaagaagccatgctgcctgtgagcccctcagaggacac
 tgagtcaaaaaaccccacgcgcttggaggcgcaggatgggaaaagaaggtggcgaccttc
 cccacccttcaatctggggcctgaactggggatcag
->DOM/2016/BB_0433
+>KY785441
 tttgaagcgaaagctagcaacagtatcaacaggttttattttggatttggaaacgagagt
 ttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgctaa
 aacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggacttc
@@ -2488,7 +2488,7 @@ ttccctatttgggaaaaagggaagacttgtggtgtggatctctcatagggcacagaccgc
 gcaccacctgggctgagaacattaaaaacacagtcaacatggtgcgcaggatcataggtg
 aggaagaaaagtacatggactacctatccacccaagttcgctacttgggtgaagaagggt
 ctacacctggagtgctgtaagcaccaatcctaatgttgtcaggcc
->USA/2016/FL022
+>KY075935
 gcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttattttggatt
 tggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccggatt
 gtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctg
@@ -2662,7 +2662,7 @@ aaatggacagacattccctatttgggaaaaagggaagacttgtggtgtggatctctcata
 gggcacagaccgcgcaccacctgggctgagaacattaaaaacacagtcaacatggtgcgc
 aggatcataggtgaggaagaaaagtacatggactacctatccacccaagtccgctacttg
 ggtgaagaagggtctacacctggagtgctgtaagcaccaatctta
->SG_027
+>KY241697
 ctgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttattttgga
 tttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccgga
 ttgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggc
@@ -2842,7 +2842,7 @@ tgagcccctcagaggacactgagtcaaaaaaccccacgcgcttggaggcgcaggatggga
 aaagaaggtggcgaccttccccacccttcaatctggggcctgaactggagatcagctgtg
 gatctccagaagagggactagtggttagaggagaccccccggaaaacgcaaaacagcata
 ttgacgctgggaaagaccagagactccatgagtttccaccacgctggccgccag
->SG_074
+>KY241744
 gaatcagactgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggtttt
 attttggatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggagg
 attccggattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggctt
@@ -3023,7 +3023,7 @@ ggatgggaaaagaaggtggcgaccttccccacccttcaatctggggcctgaactggagat
 cagctgtggatctccagaagagggactagtggttagaggagaccccccggaaaacgcaaa
 acagcatattgacgctgggaaagaccagagactccatgagtttccaccacgctggccgcc
 aggcacagatcgccgaatagcg
->SG_056
+>KY241726
 gaatcagactgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggtttt
 attttggatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggagg
 attccggattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggctt
@@ -3203,7 +3203,7 @@ gctgcctgtgagcccctcagaggacactgagtcaaaaaaccccacgcgcttggaggcgca
 ggatgggaaaagaaggtggcgaccttccccacccttcaatctggggcctgaactggagat
 cagctgtggatctccagaagagggactagtggttagaggagaccccccggaaaacgcaaa
 acagcatattgacgctgggaaagaccagagactccatgagtttccaccacgctggcc
->USA/2016/FLUR022
+>KY325473
 gtgtgaatcagactgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacagg
 ttttattttggatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccg
 gaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggg
@@ -3384,7 +3384,7 @@ cgcaggatgggaaaagaaggtggcgaccttccccacccttcaatctggggcctgaactgg
 agatcagctgtggatctccagaagagggactagtggttagaggagaccccccggaaaacg
 caaaacagcatattgacgctgggaaagaccagagactccatgagtttccaccacgctggc
 cgccaggcacagatcgccgaatagcggcggccggtgtggggaaatc
->Aedes_aegypti/USA/2016/FL05
+>KY075937
 gacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttattttggatttg
 gaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgt
 caatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgcc
@@ -3562,7 +3562,7 @@ agtcagccacagcttggggaaagctgtgcagcctgtgacccccccaggagaagctgggaa
 accaagcctatagtcaggccgagaacgccatggcacggaagaagccatgctgcctgtgag
 cccctcagaggacactgagtcaaaaaaccccacgcgcttggaggcgcaggatgggaaaag
 aaggtggcgaccttccccacccttcaatctggggcctgaactggagat
->SG_018
+>KY241688
 atgnnnnnnnnnnnnnnnnnnnccggaggattccggattgtcaatatgctaaaacgcgga
 gtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggacttctgctgggt
 catgggcccatcaggatggtcttggcgattctagcctttttgaggttcacggcaatcaag
@@ -3741,7 +3741,7 @@ tcaaaaaaccccacgcgcttggaggcgcaggatgggaaaagaaggtggcgaccttcccca
 cccttcaatctggggcctgaactggagatcagctgtggatctccagaagagggactagtg
 gttagaggagaccccccggaaaacgcaaaacagcatattgacgctgggaaagaccagaga
 ctccatgagtttccaccacgctggccgccaggcacagat
->USA/2016/FLWB042
+>KY325478
 ctttgggggcttgaagaggctgccagccggacttctgctgggtcatgggcccatcaggat
 ggtcttggcgattctagcctttttgagattcacggcaatcaagccatcactgggtctcat
 caatagatggggttcagtggggaaaaaagaggctatggaaataataaagaagttcaagaa
@@ -3916,7 +3916,7 @@ aatctcaatgttgtcaggcctgctagtcagccacagcttggggaaagctgtgcagcctgt
 gacccccccaggagaagctgggaaaccaagcctatagtcaggccgagaacgccatggcac
 ggaagaagccatgctgcctgtgagcccctcagaggacactgagtcaaaaaaccccacgcg
 cttggaggcgcaggnnnnnnaaagaag
->COL/PRV_00028/2015
+>MF574578
 ttgaagcgaaagctagcaacagtatcaacaggttttattttggatttggaaacgagagtt
 tctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgctaaa
 acgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggacttct
@@ -4095,7 +4095,7 @@ gtcaggccgagaacgccatggcacggaagaagccatgctgcctgtgagcccctcagagga
 cactgagtcaaaaaaccccacgcgcttggaggcgcaggatgggaaaagaaggtggcgacc
 ttccccacccttcaatctggggcctgaactggagatcagctgtggatctccagaagaggg
 actagtggttagaggaga
->Thailand/1610acTw
+>MF692778
 gcaacagtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaa
 cccaaaaaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccg
 tgtgagcccctttgggggcttgaagaggctgccagccggacttctgctgggccatgggcc
@@ -4271,7 +4271,7 @@ ggactacctatccacccaagttcgctacttgggtgaagaagggtctacacctggagtgct
 gtaagcaccaatcttagtgttgtcaggcctgctagtcagccacagcttggggaaagctgt
 gcagcctgtgacccccccaggagaagctgggaaaccaagcccatagtcaggccgagaacg
 ccatggcacggaag
->1_0087_PF
+>KX447509
 agtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaa
 aaaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtga
 gcccctttgggggcttgaagaggctgccagccggacttctgctgggtcatgggcccatca
@@ -4449,7 +4449,7 @@ ctgtgacccccccaggagaagctgggaaaccaagcctatagtcaggccgagaacgccatg
 gcacggaagaagccatgctgcctgtgagcccctcagaggacactgagtcaaaaaacccca
 cgcgcttggaggcgcaggatgggaaaagaaggtggcgaccttccccacccttcaatctgg
 ggcctgaactggagatcagctgtggat
->1_0199_PF
+>KX447519
 actgcgacagttcgagtttgaagcgaaagctagcaacagtatcaacaggttttattttgg
 atttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccgg
 attgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagagg
@@ -4603,7 +4603,7 @@ tgggctctagtggacaaggaaagagagcaccacctgagaggagagtgccagagttgtgtg
 tacaacatgatgggaaaaagagaaaagaaacaaggggaatttggaaaggccaagggcagc
 cgcgccatctggtatatgtggctaggggctagatttctagagttcgaagcccttggattc
 ttgaacgaggatcactggatgg
->1_0181_PF
+>KX447512
 agtatcaacaggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaa
 aaaagaaatccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtga
 gcccctttgggggcttgaagaggctgccagccggacttctgctgggtcatgggcccatca
@@ -4781,7 +4781,7 @@ ctgtgacccccccaggagaagctgggaaaccaagcctatagtcaggccgagaacgccatg
 gcacggaagaagccatgctgcctgtgagcccctcagaggacactgagtcaaaaaacccca
 cgcgcttggaggcgcaggatgggaaaagaaggtggcgaccttccccacccttcaatctgg
 ggcctgaactggagatcagctgtgga
->Brazil/2015/ZBRC301
+>KY558995
 gatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccg
 gattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagag
 gctgccagccggacttctgctgggtcatgggcccatcaggatggtcttggcgattctagc
@@ -4950,7 +4950,7 @@ gactgcttgcctagcaaaatcatatgcgcagatgtggcagctcctttatttccacagaan
 ggacctccgactgatggccaatgccatttgttcatctgtgccagttgactgggttccaac
 tgggagaactacctggtcaatccatggaaanggagaatggatgaccactgaagacatgct
 tg
->Brazil/2015/ZBRA105
+>KY558989
 gatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccg
 gattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagag
 gctgccagccggacttctgctgggtcatgggcccatcaggatggtcttggcgattctagc
@@ -5119,7 +5119,7 @@ gactgcttgcctagcaaaatcatatgcgcaaatgtggcagctcctttatttccacagaag
 ggacctccgactgatggccaatgccatttgttcatctgtgccagttgactgggttccaac
 tgggagaactacctggtcaatccatggaaagggagaatggatgaccactgaagacatgct
 tg
->Brazil/2016/ZBRC16
+>KY558991
 tgagaataatcaatgctaggaaggagaagaagagacgaggcgcagatactagtgtcggaa
 ttgttggcctcctgctgaccacagctatggcagcggaggtcactagacgtgggagtgcat
 actatatgtacttggacagaaacgatgctggggaggccatatcttttccaaccacattgg
@@ -5272,7 +5272,7 @@ atgcagatgacactgctggctgggacacccgcatcagcaggtttgatctggagaatgaag
 ctctaatcaccaaccaaatggagagagggcacagggccttggcattggccataatcaagt
 acacataccaaaacaaagtggtaaaggtccttagaccagctgaaaaagggaaaacagtta
 tggacatcatttcgagacaagaccaaaggggg
->V8375
+>KU501217
 atgaaaaacccaaaaaagaaatccggaggattccggattgtcaatatgctaaaacgcgga
 gtagcccgtgtgagcccctttgggggcttgaagaggctgccagccggacttctgctgggt
 catgggcccatcaggatggtcttggcgattctagcctttttgagattcacggcaatcaag
@@ -5445,7 +5445,7 @@ ttgggaaaaagggaagacttgtggtgtggatctctcatagggcacagaccgcgcaccacc
 tgggctgagaacattaaaaacacagtcaacatggtgcgcaggatcataggtgatgaagaa
 aagtacatggactacctatccacccaagttcgctacttgggtgaagaagggtctacacct
 ggagtgctgtaa
->Nica1_16
+>KX421195
 tcgagtttgaagcgaaagctagcaacagtatcaacaggttttattttggatttggaaacg
 agagtttctggtcatgaaaaacccaaaaaagaaatccggaggattccggattgtcaatat
 gctaaaacgcggagtagcccgtgtgagcccctttgggggcttgaagaggctgccagccgg
@@ -5624,7 +5624,7 @@ cctatagtcaggccgagaacgccatggcacggaagaagccatgctgcctgtgagcccctc
 agaggacactgagtcaaaaaaccccacgcgcttggaggcgcaggatgggaaaagaaggtg
 gcgaccttccccacccttcaatctggggcctgaactggagatcagctgtggatctccaga
 agagggactagtggttagaggag
->Brazil/2015/ZBRC303
+>KY558997
 tgagaataatcaatgctaggaaggagaagaagagacgaggcacagatactagtgtcggaa
 ttgttggcctcctgctgaccacagctatggcagcggaggtcactagacgtgggagtgcat
 actatatgtacttggacagaaacgatgctggggaggccatatcttttccaaccacattgg
@@ -5782,7 +5782,7 @@ agatgcaagacttgtggctgctgcggaggtcagagaaagtgaccaactggttgcagagca
 acggatgggataggctcaaacgaatggcagtcagtggagatgattgcgttgtgaagccaa
 ttgatgataggtttgcacatgccctcaggttcttgaatgatatgggaaaagttaggaagg
 acacacaagagtgg
->SMGC_1
+>KX266255
 tctgtgtgaatcagactgcgacagttcgagtttgaagcgaaagctagcaacagtatcaac
 aggttttattttggatttggaaacgagagtttctggtcatgaaaaacccaaaaaagaaat
 ccggaggattccggattgtcaatatgctaaaacgcggagtagcccgtgtgagcccctttg