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Large Scale Sequence Analysis of Avian Influenza Isolates

Table S1. Viruses included in study.

The virus names are listed with their assigned three-digit project numbers used in our sequencing pipeline.

Project Virus Name Project Virus Name
001 A/MALLARD DUCK/ALB/77/77 181 A/PINTAIL/ALBERTA/269/2001
002 A/PINTAIL DUCK/ALB/293/77 182 A/BLUE-WINGED TEAL/ALBERTA/293/2003
003 A/LAUGHING GULL/NJ/75/85 183 A/MALLARD DUCK/ALB/291/77
004 A/MALLARD DUCK/ALB/884/84 184 A/MALLARD DUCK/ALB/645/80
005 A/MALLARD DUCK/ALB/376/85 185 A/HERRING GULL/NJ/406/89
006 A/SANDERLING/NJ/766/86 186 A/SHOREBIRD/DE/75/2004
007 A/HERRING GULL/DE/475/86 187 A/MALLARD DUCK/ALB/283/77
008 A/HERRING GULL/DE/670/88 188 A/PINTAIL DUCK/ALB/114/79
009 A/HERRING GULL/DE/698/88 189 A/BLUE-WINGED TEAL/ALB/39/82
010 A/HERRING GULL/DE/703/88 190 A/MALLARD DUCK/ALB/7/87
011 A/LAUGHING GULL/NJ/798/86 191 A/MALLARD/ALB/194/92
012 A/MALLARD DUCK/ALB/323/88 192 A/MALLARD DUCK/ALB/224/77
013 A/MALLARD DUCK/ALB/353/88 194 A/BLUE-WINGED TEAL/ALB/295/77
014 A/MALLARD/ALB/201/96 195 A/WIDGEON/ALB/284/77
015 A/MALLARD/ALB/202/96 196 A/MALLARD DUCK/ALB/279/77
016 A/BLUE-WINGED TEAL/ALB/16/97 197 A/GADWALL DUCK/ALB/291/77
017 A/MALLARD/ALB/205/98 198 A/BLUE-WINGED TEAL/ALB/221/78
018 A/MALLARD/ALB/226/98 199 A/PINTAIL DUCK/ALB/121/79
019 A/MALLARD/ALBERTA/149/2002 201 A/PINTAIL DUCK/ALB/169/80
020 A/MALLARD/ALBERTA/79/2003 202 A/GREEN-WINGED TEAL/ALB/228/85
021 A/MALLARD DUCK/ALB/250/78 203 A/MALLARD DUCK/ALB/435/85
022 A/BLUE-WINGED TEAL/ALB/368/78 205 A/LAUGHING GULL/DE/2838/87
023 A/BLUE-WINGED TEAL/ALB/48/78 206 A/RUDDY TURNSTONE/DE/2378/88
024 A/MALLARD DUCK/ALB/280/78 207 A/RED KNOT/NJ/325/89
025 A/MALLARD DUCK/ALB/290/78 209 A/PINTAIL/ALB/129/93
026 A/PINTAIL DUCK/ALB/133/78 211 A/MALLARD/ALB/114/99
027 A/PINTAIL DUCK/ALB/367/78 213 A/MALLARD/ALBERTA/34/2001
028 A/BLUE-WINGED TEAL/ALB/651/78 214 A/MALLARD DUCK/ALB/743/83
029 A/MALLARD DUCK/ALB/761/78 215 A/MALLARD DUCK/ALB/98/85
030 A/PINTAIL DUCK/ALB/647/78 216 A/RUDDY TURNSTONE/DE/2576/87
031 A/MALLARD DUCK/ALB/205/78 217 A/LAUGHING GULL/DE/2718/87
032 A/PINTAIL DUCK/ALB/1040/79 218 A/RUDDY TURNSTONE/DE/2731/87
033 A/PINTAIL DUCK/ALB/1045/79 219 A/RUDDY TURNSTONE/DE/510/88
034 A/MALLARD DUCK/ALB/1081/79 220 A/MALLARD DUCK/ALB/321/88
035 A/MALLARD DUCK/ALB/1270/79 221 A/MALLARD/ALB/11/91
036 A/PINTAIL DUCK/ALB/1303/79 222 A/MALLARD/ALB/17/91
037 A/PINTAIL DUCK/ALB/1343/79 223 A/SHOREBIRD/DE/66/2003
038 A/KNOT/DE/526/88 224 A/SHOREBIRD/DE/68/2003
039 A/LAUGHING GULL/NJ/276/89 225 A/SHOREBIRD/DE/231/2003
040 A/PINTAIL DUCK/ALB/1360/79 226 A/SHOREBIRD/DE/261/2003
041 A/MALLARD DUCK/ALB/564/79 227 A/SHOREBIRD/DE/286/2003
042 A/PINTAIL DUCK/ALB/628/79 228 A/MALLARD DUCK/ALB/302/77
043 A/MALLARD DUCK/ALB/676/79 229 A/BLUE-WINGED TEAL/ALB/778/78
044 A/MALLARD DUCK/ALB/1151/79 230 A/MALLARD DUCK/ALB/742/81
045 A/PINTAIL DUCK/ALB/1298/79 231 A/MALLARD DUCK/ALB/40/84
046 A/MALLARD DUCK/ALB/730/81 232 A/PINTAIL DUCK/ALB/584/84
047 A/PINTAIL DUCK/ALB/189/82 233 A/REDHEAD DUCK/ALB/767/84
048 A/WIDGEON/ALB/256/82 234 A/RUDDY TURNSTONE/DE/2764/87
049 A/BLUE-WINGED TEAL/ALB/266/82 235 A/MALLARD DUCK/ALB/666/86
050 A/MALLARD DUCK/ALB/289/82 236 A/MALLARD/ALB/5/95
051 A/BLUE-WINGED TEAL/ALB/685/82 237 A/MALLARD/ALB/196/96
052 A/MALLARD DUCK/ALB/10/85 238 A/RUDDY TURNSTONE/DE/76/2000
053 A/BLUE-WINGED TEAL/ALB/69/85 239 A/PINTAIL/ALBERTA/202/2000
054 A/MALLARD DUCK/ALB/76/85 240 A/MALLARD/ALBERTA/208/2000
055 A/PINTAIL DUCK/ALB/111/85 241 A/SHOREBIRD/DE/122/2004
056 A/SHOVELER/ALB/114/85 242 A/REDHEAD DUCK/ALB/357/83
057 A/MALLARD DUCK/ALB/155/90 243 A/MALLARD DUCK/ALB/763/83
058 A/MALLARD DUCK/ALB/191/90 244 A/MALLARD DUCK/ALB/797/83
059 A/MALLARD DUCK/ALB/253/90 245 A/RUDDY TURNSTONE/DE/2589/87
060 A/MALLARD/ALB/199/92 247 A/RUDDY TURNSTONE/DE/2762/87
061 A/PINTAIL/ALB/179/93 248 A/RUDDY TURNSTONE/DE/637/88
062 A/MALLARD/ALB/206/96 249 A/RUDDY TURNSTONE/NJ/842/89
064 A/MALLARD/ALBERTA/154/2003 250 A/MALLARD/ALB/124/91
065 A/SHOREBIRD/DE/12/2004 251 A/MALLARD/ALB/126/91
066 A/MALLARD DUCK/ALB/65/76 252 A/MALLARD/ALBERTA/125/99
067 A/MALLARD/ALBERTA/130/2003 253 A/PINTAIL/ALBERTA/84/2000
068 A/MALLARD DUCK/ALB/31/76 254 A/SHOREBIRD/DE/236/2003
069 A/PINTAIL/ALBERTA/166/2003 255 A/PINTAIL DUCK/ALB/306/83
070 A/MALLARD DUCK/ALB/20/76 256 A/MALLARD DUCK/ALB/342/83
071 A/MALLARD/ALBERTA/254/2003 257 A/GREEN-WINGED TEAL/ALB/199/91
072 A/MALLARD DUCK/ALB/57/76 259 A/LAUGHING GULL/DE/94/2000
074 A/MALLARD DUCK/ALB/48/76 260 A/RUDDY TURNSTONE/DE/97/2000
075 A/MALLARD/ALBERTA/27/2001 261 A/SHOREBIRD/NJ/840/86
076 A/MALLARD DUCK/ALB/396/83 262 A/HERRING GULL/DE/471/86
077 A/PINTAIL/ALBERTA/49/2003 263 A/LAUGHING GULL/DE/554/88
078 A/PINTAIL DUCK/ALB/303/77 264 A/HERRING GULL/DE/660/88
079 A/MALLARD/ALBERTA/209/2003 265 A/MALLARD DUCK/AST/263/82
080 A/MALLARD DUCK/ALB/294/77 266 A/MALLARD DUCK/AST/244/82
081 A/MALLARD/ALBERTA/245/2003 267 A/MALLARD DUCK/AST/266/82
082 A/MALLARD DUCK/ALB/60/76 268 A/DUCK/AUS/341/83
083 A/MALLARD/ALB/52/97 269 A/WEDGE-TAILED SHEARWATER/WESTERN AUSTRALIA/2576/79
084 A/HERRING GULL/NJ/780/86 270 A/SEMI-PALMATED SANDPIPER/BRAZIL/43/90
085 A/RUDDY TURNSTONE/NJ/49/85 271 A/SANDERLING/DE/1258/86
086 A/HERRING GULL/NJ/402/89 272 A/QUAIL/NANCHANG/12-340/2000
087 A/SHOREBIRD/DE/101/2004 273 A/DUCK/NANCHANG/2-0486/2000
088 A/RUDDY TURNSTONE/NJ/65/85 274 A/DUCK/NANCHANG/4-184/2000
089 A/KNOT/DE/2552/87 275 A/CHICKEN/NANCHANG/3-120/2001
090 A/LAUGHING GULL/DE/5/2003 276 A/PIGEON/NANCHANG/9-058/2000
091 A/KNOT/DE/2561/87 277 A/BANTAN/NANCHANG/9-366/2000
092 A/SHOREBIRD/DE/10/2004 278 A/CHICKEN/NANCHANG/7-010/2000
093 A/RUDDY TURNSTONE/NJ/51/85 279 A/QUAIL/NANCHANG/7-026/2000
094 A/SHOREBIRD/DE/68/2004 280 A/PIGEON/NANCHANG/8-142/2000
095 A/HERRING GULL/NJ/782/86 281 A/DUCK/NANCHANG/8-174/2000
096 A/MALLARD DUCK/ALB/42/77 282 A/DUCK/NANCHANG/1681/92
097 A/MALLARD DUCK/ALB/46/77 283 A/DUCK/NANCHANG/1941/93
099 A/PINTAIL DUCK/ALB/219/77 284 A/DUCK/NANCHANG/D106/97
100 A/PINTAIL DUCK/ALB/238/79 285 A/CHICKEN/NANCHANG/2-0527/2000
102 A/MALLARD DUCK/ALB/965/79 286 A/QUAIL/NANCHANG/4-034/2000
103 A/PINTAIL DUCK/ALB/631/81 287 A/DUCK/NANCHANG/4-165/2000
104 A/MALLARD/ALB/267/96 288 A/DUCK/NANCHANG/1904/92
105 A/MALLARD/ALB/201/98 289 A/QUAIL/NANCHANG/2-0460/2000
106 A/COOT/ALB/134/87 290 A/PIGEON/NANCHANG/2-0461/2000
107 A/MALLARD DUCK/ALB/294/87 291 A/WILD DUCK/NANCHANG/2-0480/2000
108 A/MALLARD DUCK/ALB/322/88 292 A/CHICKEN/NANCHANG/4-301/2001
110 A/BLUE-WINGED TEAL/ALB/141/92 293 A/DUCK/NANCHANG/4-361/2001
111 A/PINTAIL DUCK/ALBERTA/210/2002 294 A/DUCK/NANCHANG/1749/92
112 A/HERRING GULL/DE/692/88 295 A/DUCK/HONG KONG/319/78
113 A/HERRING GULL/DE/712/88 296 A/DUCK/HONG KONG/278/78
114 A/RUDDY TURNSTONE/DE/773/88 297 A/DUCK/HONG KONG/7/75
115 A/MALLARD DUCK/ALB/25/76 298 A/GOOSE/HK/10/76
116 A/PINTAIL DUCK/ALB/86/76 299 A/DUCK/HK/231/77
117 A/CANVASBACK DUCK/ALB/102/76 300 A/DUCK/HONG KONG/365/78
118 A/BLUE-WINGED TEAL/ALB/286/77 301 A/DUCK/HONG KONG/342/78
119 A/MALLARD DUCK/ALB/127/77 302 A/GOOSE/HONG KONG/23/78
120 A/MALLARD DUCK/ALB/712/78 303 A/DUCK/HONG KONG/205/77
121 A/GREEN-WINGED TEAL/ALB/438/79 304 A/DUCK/HONG KONG/D73/76
122 A/PINTAIL DUCK/ALB/462/79 305 A/CHICKEN/HONG KONG/17/77
123 A/PINTAIL DUCK/ALB/627/79 306 A/DUCK/HONG KONG/D134/77
124 A/MALLARD DUCK/ALB/663/79 307 A/DK/HONG KONG/293/78
125 A/MALLARD DUCK/ALB/1012/79 308 A/DUCK/HONG KONG/24/76
126 A/BLUE-WINGED TEAL/ALB/452/83 309 A/DUCK/HK/784/79
127 A/MALLARD DUCK/ALB/506/83 310 A/DUCK/HK/147/77
128 A/MALLARD DUCK/ALB/635/83 311 A/DUCK/HONG KONG/562/79
130 A/MALLARD DUCK/ALB/438/85 312 A/BLACK DUCK/AUS/751/78
131 A/MALLARD DUCK/ALB/525/85 313 A/SHEARWATER/AUS/405/78
132 A/BLUE-WINGED TEAL/ALB/569/85 314 A/GRAY TEAL/AUS/1/79
134 A/MALLARD DUCK/ALB/144/87 315 A/GRAY TEAL/AUS/2/79
135 A/MALLARD/ALB/394/88 316 A/GRAY TEAL/AUS/3/79
140 A/MALLARD/ALB/129/91 317 A/DUCK/AUS/749/80
141 A/MALLARD/ALB/118/95 318 A/BLACK DUCK/AUS/4045/80
142 A/MALLARD/ALBERTA/31/2001 319 A/RED-NECKED STINT/AUS/4189/80
143 A/MALLARD/ALBERTA/156/2001 320 A/RED-NECKED STINT/AUS/4500/80
144 A/MALLARD DUCK/ALB/26/76 321 A/RED-NECKED STINT/AUS/5745/81
145 A/MALLARD DUCK/ALB/299/77 322 A/AUSTRALIAN SHELDUCK/WESTERN AUSTRALIA /1756/83
146 A/CANVASBACK DUCK/ALB/274/77 323 A/SOOTY TERN/WESTERN AUSTRALIA/2190/83
147 A/GADWALL DUCK/ALB/53/77 324 A/WEDGE-TAILED SHEARWATER/WESTERN AUSTRALIA/2327/83
148 A/REDHEAD DUCK/ALB/74/77 325 A/DUCK/NZL/31/76
149 A/BLUE-WINGED TEAL/ALB/243/77 326 A/DUCK/NZL/160/76
150 A/MALLARD DUCK/ALB/300/77 327 A/DUCK/NZL/164/76
151 A/MALLARD DUCK/ALB/210/77 328 A/DUCK/NZL/76/84
152 A/PINTAIL DUCK/ALB/159/77 329 A/DUCK/NZL/78/84
153 A/MALLARD DUCK/ALB/161/77 330 A/DUCK/NZL/38/84
154 A/PINTAIL DUCK/ALB/220/77 331 A/DUCK/NZL/41/84
155 A/MALLARD DUCK/ALB/354/78 332 A/MALLARD/POTSDAM/177-4/83
156 A/MALLARD DUCK/ALB/106/79 333 A/DUCK/POTSDAM/2216-4/84
157 A/BLUE-WINGED TEAL/ALB/580/79 335 A/DUCK/POTSDAM/1402-6/86
158 A/PINTAIL DUCK/ALB/599/79 339 A/TURKEY/ITALY/3620/99
159 A/MALLARD DUCK/ALB/581/83 340 A/TURKEY/ITALY/4169/99
160 A/RUDDY TURNSTONE/NJ/47/85 341 A/QUAIL/ITALY/1117/65
161 A/LAUGHING GULL/NJ/72/85 342 A/EQ/PRAGUE/1/56
162 A/MALLARD DUCK/ALB/630/84 343 A/MALLARD DUCK/ALB/35/76
163 A/MALLARD DUCK/ALB/25/85 344 A/GULL/MD/19/77
164 A/REDHEAD DUCK/ALB/116/85 345 A/DUCK/UKR/1/63
165 A/BLUE-WINGED TEAL/ALB/562/85 346 A/DUCK/CZECHOSLOVAKIA/56
166 A/PINTAIL DUCK/ALB/623/85 348 A/SHEARWATER/AUSTRALIA/1/73
167 A/RUDDY TURNSTONE/DE/512/88 349 A/TURKEY/ONTARIO/6118/68
168 A/KNOT/DE/541/88 357 A/CHICKEN/HIDALGO/28159-232/94
169 A/HERRING GULL/DE/665/88 358 A/CHICKEN/CHIS/15224/97
171 A/RUDDY TURNSTONE/DE/2368/88 359 A/MALLARD/NETHERLANDS/12/2000
172 A/BLUE-WINGED TEAL/ALB/67/90 360 A/SHOVELER/NETHERLANDS/19/99
173 A/BLUE-WINGED TEAL/ALB/103/90 361 A/GULL/MN/945/80
174 A/BLUE-WINGED TEAL/ALB/136/90 362 A/PIGEON/MN/1407/81
175 A/BLUE-WINGED TEAL/ALB/293/94 363 A/GOOSE/MN/5733-1/80
176 A/MALLARD/ALB/49/95 364 A/BLUE-WINGED TEAL/MN/993/80
177 A/PINTAIL/ALB/275/96 365 A/PHEASANT/MN/917/80
178 A/MALLARD/ALB/47/98 366 A/DUCK/MN/1516/81
179 A/PINTAIL/ALBERTA/207/99 367 A/DOMESTIC DUCK/MN/1086/80
180 A/MALLARD/ALBERTA/30/2001 373 A/TURKEY/MN/833/80