In [2]:

    

import pandas as pd
import numpy as np
import matplotlib.pyplot as plt
import networkx as nx
import brewer2mpl
import math


from datetime import datetime
from Bio import AlignIO, SeqIO
from Bio.SeqRecord import SeqRecord
from Bio.Align.Applications import ClustalOmegaCommandline
from __future__ import division
from Bio.Seq import Seq
from collections import Counter
from sdi import sdi
from copy import deepcopy
from random import shuffle
from scipy.stats.mstats import mquantiles
from sklearn.ensemble import RandomForestClassifier
from sklearn.preprocessing import LabelEncoder

%matplotlib inline


    

In [3]:

    

data = pd.read_csv('H9_HA_dataset.csv', index_col='Accession ')
data = data[data['Trimmed Sequence*'].str[0:3] == 'ATG']
data['Trimmed Sequence*'] = data['Trimmed Sequence*'].str.replace('~', '')
data['Trimmed Sequence*'] = data['Trimmed Sequence*'].str.replace('-', '')
data['Sequence Length'] = data['Trimmed Sequence*'].str.len()
data = data[data['HostType_Code1'] != 'Avian (unidentified)'] # filter out unidentified
data['Geo_Code'] = data['Geo_Code'].str.replace('_', '.')
plt.hist(data['Sequence Length'].values, bins=100)
plt.show()
data = data[data['Sequence Length'] > 1600] # filter out non-full length
data


    

    













    
Out[3]:






  

    

      

      
Host
      
Species
      
HostCategory_Islam
      
HostTaxa_Nic
      
HostType_Nic
      
HostType_Code1
      
HostType_Code1S
      
HostType_Code2
      
HostOrder_Nic
      
Geo_Code
      
...
      
Date_Est
      
Gene segment
      
Taxa label
      
Trimmed Sequence*
      
Unnamed: 22
      
Unnamed: 23
      
Unnamed: 24
      
Unnamed: 25
      
Unnamed: 26
      
Sequence Length
    
    

      
Accession 
      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

      

    
  
  

    

      
CY031275
      
 Avian
      
 duck-quail adapted
      
               ?
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
           Quail
      
     Galliformes
      
  China.Central
      
...
      
 1979-06-15
      
 >4
      
  A/duck/Hong Kong/702/1979-quail adapted
      
 ATGGAAACAAAAGCACTAATAGCTATACTGTTAATGGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
KF188339
      
 Avian
      
              goose
      
    Anseriformes
      
        Anseriformes
      
       Wild bird
      
     Wild
      
 W
      
    Anseriformes
      
    Anseriformes
      
         N.Amer
      
...
      
 1980-06-15
      
 >4
      
         A/goose/Minnesota/5733-1243/1980
      
 ATGGAAACAACAACACTAATAGCTATACTGCTAATGGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
KF188287
      
 Avian
      
             turkey
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
          Turkey
      
     Galliformes
      
         Europe
      
...
      
 1983-06-15
      
 >4
      
                  A/turkey/Pavia/141/1983
      
 ATGGAGACAATAGCACCAATAGCTATACTGTTAATGGTAACAGCAG...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
CY005919
      
 Avian
      
            mallard
      
    Anseriformes
      
        Anseriformes
      
       Wild bird
      
     Wild
      
 W
      
    Anseriformes
      
    Anseriformes
      
         N.Amer
      
...
      
 1983-08-07
      
 >4
      
              A/mallard duck/ALB/396/1983
      
 ATGGAAATAACAACACTAATAGCTATACTGCTAATGGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
CY101406
      
 Avian
      
    ruddy turnstone
      
 Charadriiformes
      
     Charadriiformes
      
       Wild bird
      
     Wild
      
 W
      
 Charadriiformes
      
 Charadriiformes
      
         N.Amer
      
...
      
 1987-05-19
      
 >4
      
 A/ruddy turnstone/Delaware Bay/2795/1987
      
 ATGGAAATAACAACACTAGTAGCTATACTGCTAATGGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1696
    
    

      
CY005986
      
 Avian
      
      laughing gull
      
 Charadriiformes
      
     Charadriiformes
      
       Wild bird
      
     Wild
      
 W
      
 Charadriiformes
      
 Charadriiformes
      
         N.Amer
      
...
      
 1987-06-09
      
 >4
      
   A/laughing gull/Delaware Bay/2718/1987
      
 ATGGAAATAACAACACTAGTAGCTATACTGCTAATGGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
CY101507
      
 Avian
      
    ruddy turnstone
      
 Charadriiformes
      
     Charadriiformes
      
       Wild bird
      
     Wild
      
 W
      
 Charadriiformes
      
 Charadriiformes
      
         N.Amer
      
...
      
 1988-05-28
      
 >4
      
     A/ruddy turnstone/Virginia/2297/1988
      
 ATGGAAATAACAACACTAGTAGCTATACTGATAATGGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1696
    
    

      
AB303077
      
 Avian
      
            mallard
      
    Anseriformes
      
        Anseriformes
      
       Wild bird
      
     Wild
      
 W
      
    Anseriformes
      
    Anseriformes
      
         Europe
      
...
      
 1993-06-15
      
 >4
      
             A/mallard/Ireland/PV46B/1993
      
 ATGGAAATAACAGCATTAATAGCTATACTGTTAGTGACAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1690
    
    

      
AF156379
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 1994-06-15
      
 >4
      
               A/Chicken/Hong Kong/739/94
      
 ATGGAAACAATATCACTAATAACTATACTACTAGTAATAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1671
    
    

      
HE802066
      
 Avian
      
               duck
      
               ?
      
 Duck (unidentified)
      
       Wild bird
      
     Wild
      
 W
      
    Anseriformes
      
    Anseriformes
      
         Europe
      
...
      
 1995-06-15
      
 >4
      
                  A/duck/Germany/113/1995
      
 ATGGAAATAATAGCACTAATAGCTATACTGTTAGTGACAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
JX273569
      
 Avian
      
             turkey
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
          Turkey
      
     Galliformes
      
         Europe
      
...
      
 1995-06-15
      
 >4
      
              A/turkey/Germany/EK224/1995
      
 ATGGAAATAATAGCATTAATAGCTATACTGTTAGTGACAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
CY102188
      
 Avian
      
          shorebird
      
 Charadriiformes
      
     Charadriiformes
      
       Wild bird
      
     Wild
      
 W
      
 Charadriiformes
      
 Charadriiformes
      
         N.Amer
      
...
      
 1996-05-14
      
 >4
      
         A/shorebird/Delaware Bay/31/1996
      
 ATGGAAACCAGAACACTAATAGCTGCGCTTCTGATTGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
DQ064377
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 1996-06-15
      
 >4
      
                  A/chicken/Shandong/7/96
      
 ATGGAAACAACATCACTAATAACTATACTACTACTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
GU053186
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 1996-06-15
      
 >4
      
            A/chicken/Korea/MS96-CE6/1996
      
 ATGGAAATAATAGCACTAATAGCTATACTGGTAGTGACAAAAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1696
    
    

      
AB049159
      
 Avian
      
           parakeet
      
  Passeriformes?
      
      Psittaciformes
      
    Captive wild
      
     Wild
      
 W
      
           Other
      
             NaN
      
 E.Asia.E.China
      
...
      
 1997-06-15
      
 >4
      
                    A/parakeet/Chiba/1/97
      
 ATGGAAACAATATCACTACTAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AB432938
      
 Avian
      
               duck
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
    DomDuckGeese
      
    Anseriformes
      
  China.Central
      
...
      
 1997-06-15
      
 >4
      
               A/duck/Hong Kong/W213/1997
      
 ATGGAAGCAGTATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
DQ064360
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 1997-06-15
      
 >4
      
                 A/chicken/Guangdong/5/97
      
 ATGGAAGCAGTATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
JQ344328
      
 Avian
      
               duck
      
               ?
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
    DomDuckGeese
      
    Anseriformes
      
        SE.Asia
      
...
      
 1997-09-24
      
 >4
      
                  A/duck/Malaysia/91/1997
      
 ATGGAAGCAACAGCAATAATAACCATACTATTAGTAATAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
KF800947
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 1998-02-02
      
 >4
      
               A/chicken/Iran/av1221/1998
      
 ATGGAACAGGTATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AB049160
      
 Avian
      
           parakeet
      
  Passeriformes?
      
      Psittaciformes
      
    Captive wild
      
     Wild
      
 W
      
           Other
      
             NaN
      
 E.Asia.E.China
      
...
      
 1998-06-15
      
 >4
      
                 A/parakeet/Narita/92A/98
      
 ATGGAAACAATATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AF461510
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 1998-06-15
      
 >4
      
                   A/Chicken/Jiangsu/2/98
      
 ATGGAAACAATATCACTAATAACTATACTACTAGTAGTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AY743216
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 1998-06-15
      
 >4
      
                  A/Chicken/Shanghai/F/98
      
 ATGGAAACAATATCACTAATAGCTATACTACTAGTAGTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
CY081264
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 1998-06-15
      
 >4
      
          A/chicken/Saudi Arabia/CP7/1998
      
 ATGGAAACAATATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
FJ794817
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 1998-06-15
      
 >4
      
                  A/chicken/Iran/SS1/1998
      
 ATGGAAACAGTATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1709
    
    

      
JQ419725
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 1998-06-15
      
 >4
      
                  A/chicken/Iran/725/1998
      
 ATGGAAACAACATCACTGTTAACTATACTACTAGTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1677
    
    

      
GQ497118
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 1998-10-26
      
 >4
      
                  A/chicken/Iran/661/1998
      
 ATGGAACAGGTATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1677
    
    

      
AF461512
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 1999-06-15
      
 >4
      
                     A/Chicken/Gansu/1/99
      
 ATGGAAACAATATCACTAATAACTATACTACTAATAGTAACAGCAG...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AF461528
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 1999-06-15
      
 >4
      
                    A/Chicken/Yunnan/1/99
      
 ATGGAAACAATATCACTAATAACTATAATACTAGTAGTAACGGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AF508556
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
         S.Asia
      
...
      
 1999-06-15
      
 >4
      
                  A/chicken/Pakistan/5/99
      
 ATGGAAACAAGATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1648
    
    

      
AF508568
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 1999-06-15
      
 >4
      
                   A/Chicken/Ningxia/5/99
      
 ATGGAAACAATATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1634
    
    

      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
    
    

      
JN804540
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 2011-07-15
      
 >4
      
                 A/chicken/Shanxi/43/2011
      
 ATGGAGACAGTATCACTAATAACTATACTACTAGTAGTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JN804542
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 2011-07-15
      
 >4
      
              A/chicken/Chongqing/K7/2011
      
 ATGGAGACAGCATCACTAATAACTATGCTACTAGTAGCAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JN804543
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 2011-07-15
      
 >4
      
             A/chicken/Chongqing/K16/2011
      
 ATGGAGACAGTATCTCTAATAACTATACTACTAGTATTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JN804544
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 2011-07-15
      
 >4
      
              A/chicken/Chongqing/K3/2011
      
 ATGGAGACAGTATCTCTAATAACTATACTACTAGTATTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JN804545
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
     China.West
      
...
      
 2011-07-15
      
 >4
      
             A/chicken/Chongqing/A56/2011
      
 ATGGAGACAGTATCTCTAATAACTATACTACTAGTATTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JN804547
      
 Avian
      
               duck
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
    DomDuckGeese
      
    Anseriformes
      
     China.West
      
...
      
 2011-07-15
      
 >4
      
                A/duck/Chongqing/B36/2011
      
 ATGGAGACAGTATCTCTAATAACTATACTACTAGTATTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JN804557
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 2011-07-15
      
 >4
      
             A/chicken/Guangdong/286/2011
      
 ATGGAAGCAGCAACAATAATAACTATACTACTAGCAATAACAGGAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1675
    
    

      
JQ906555
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2011-10-15
      
 >4
      
             A/chicken/Egypt/115636V/2011
      
 ATGGAAATAACACCACTGATGACTATACTACTATTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
KC162234
      
 Avian
      
        baikal teal
      
    Anseriformes
      
        Anseriformes
      
       Wild bird
      
     Wild
      
 W
      
    Anseriformes
      
    Anseriformes
      
 E.Asia.E.China
      
...
      
 2011-10-15
      
 >4
      
          A/baikal teal/Xianghai/421/2011
      
 ATGGAAATAATAGCACTAATAGCTATACTATTAGTAACAACAACGA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
CY110927
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2011-12-15
      
 >4
      
              A/chicken/Egypt/S4454E/2011
      
 ATGGAAATAATACCACTGACGACTATACTACTATTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1685
    
    

      
CY110928
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2011-12-15
      
 >4
      
              A/chicken/Egypt/S4456B/2011
      
 ATGGAAATAATACCACTGACGACTATACTACTATTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
JQ770133
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 2011-12-15
      
 >4
      
           A/chicken/Guangdong/LJT12/2011
      
 ATGGAAGTAGTATCACTAATAACTATACTACTAGTAATAACAGGAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
JQ973658
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2011-12-15
      
 >4
      
               A/chicken/Israel/1115/2011
      
 ATGGAAATAATATCACTGATGACTATACTACTGGTGGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
JQ973660
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2011-12-15
      
 >4
      
               A/chicken/Israel/1164/2011
      
 ATGGAAATAACATCACTGATGACTATACTACTAGTAATAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
JQ973652
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2012-01-15
      
 >4
      
                 A/chicken/Israel/11/2012
      
 ATGGAAACAATATCACTGATGACTATACTACTGGTGGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
JQ973653
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2012-01-15
      
 >4
      
                 A/chicken/Israel/46/2012
      
 ATGGAACCAATATCACTGATGACTATACTACTGGTGGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
JQ973654
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2012-01-15
      
 >4
      
                 A/chicken/Israel/50/2012
      
 ATGGAAATAATATCACTGATGACTGTACTACTAGTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
KC417046
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 2012-01-15
      
 >4
      
               A/chicken/Shanghai/C1/2012
      
 ATGGAAGTAGTATCACTAATAACTATACTACTAGTAGCAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
JQ906557
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2012-02-15
      
 >4
      
               A/chicken/Egypt/1226B/2012
      
 ATGGAAATAATACCACTGACGACTATACTACTATTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1652
    
    

      
JQ906558
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2012-02-15
      
 >4
      
               A/chicken/Egypt/1231B/2012
      
 ATGGAAATAATACCACTGATGACTGTACTGCTATTAGTAACATCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1652
    
    

      
KC817014
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 2012-02-15
      
 >4
      
                 A/chicken/Henan/ZK2/2012
      
 ATGGAGACAGCATCGCTGATGACTATACTACTAGTAGTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
JX448765
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 2012-03-15
      
 >4
      
                A/chicken/Fujian/SN2/2012
      
 ATGGAAGTAGTATCACTGATAACTACACTGTTAGCAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
JX846585
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 2012-06-15
      
 >4
      
                  A/chicken/Henan/YX/2012
      
 ATGGAAGTAGTATCACTAATAACTATACTACTAGTAGTAACAGTAT...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
KC951122
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
  China.Central
      
...
      
 2013-01-15
      
 >4
      
             A/chicken/Guangdong/LG1/2013
      
 ATGGAGACAGTATCACTAATAACTATACTACTAGTAGCAACAATAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
KF918709
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2013-01-15
      
 >4
      
                 A/chicken/Israel/74/2013
      
 ATGGAAATAATATCACTGATGACTGTACTACTAGTAGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
KF918708
      
 Avian
      
            chicken
      
         Poultry
      
             Poultry
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
    Middle.East
      
...
      
 2013-04-15
      
 >4
      
                A/chicken/Israel/502/2013
      
 ATGGAAGCAATATCACTGATGACTATACTACTGGTGGTAACAACAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1680
    
    

      
KJ128362
      
 Avian
      
             pigeon
      
               ?
      
       Columbiformes
      
       Wild bird
      
     Wild
      
 W
      
           Other
      
             NaN
      
 E.Asia.E.China
      
...
      
 2013-04-15
      
 >4
      
               A/pigeon/Shanghai/JC1/2013
      
 ATGGAAGTAGTATCACTAATAACTATACTACTAGTAGCAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
    

      
AF156378
      
 Avian
      
                  ?
      
     Galliformes
      
               quail
      
 Domestic animal
      
 Domestic
      
 D
      
           Quail
      
     Galliformes
      
  China.Central
      
...
      
 1997-06-15
      
 >4
      
                 A/Quail/Hong Kong/G1/97 
      
 ATGGAAACAATATCGCTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1629
    
    

      
AF156380
      
 Avian
      
            Poultry
      
         Poultry
      
             chicken
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 1994-06-15
      
 >4
      
                 A/chicken/Beijing/1/1994
      
 ATGGAAACAATATCACTAATAACTATACTACTAGTAGTAACAGCAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1660
    
    

      
AF461532
      
 Avian
      
            Poultry
      
         Poultry
      
             chicken
      
 Domestic animal
      
 Domestic
      
 D
      
         Chicken
      
     Galliformes
      
 E.Asia.E.China
      
...
      
 1998-06-15
      
 >4
      
                  A/Chicken/Shanghai/F/98
      
 ATGGAAACAATATCACTAATAGCTATACTACTAGTAGTAACAGTAA...
      
NaN
      
NaN
      
NaN
      
NaN
      
NaN
      
 1683
    
  

638 rows × 27 columns

In [4]:

    

# From the data, pull out accession and sequence, and store as a list of SeqRecords.
sequences = []
for row in data.iterrows():
    sequence = SeqRecord(Seq(row[1]['Trimmed Sequence*']), 
                         id=row[0] + '_' + str(row[1]['HostType_Code1S']) + '_' + str(row[1]['Geo_Code']) + '_' + str(row[1]['HostOrder_Nic']))
    sequences.append(sequence)


    

In [5]:

    

# sequences


    

In [6]:

    

# # Function to find longest ORFs:
# def longest_orfs(list_of_seqrecords):
#     aa_sequences = []
#     for i, record in enumerate(list_of_seqrecords):
# #         print(i, record.seq)
#         longest_protein = SeqRecord(id=record.id, seq='')
#         for frame in range(3):
#             length = 3 * ((len(record) - frame) // 3)
#             translation = record.seq[frame:frame + length].translate()
#             for pro in translation.split("*"):
#                 if len(pro) > len(longest_protein.seq):
#                     longest_protein.seq = pro
#         aa_sequences.append(longest_protein)
        
#     return aa_sequences


    

In [7]:

    

# # Uncomment this cell if you need to re-write them to disk.

# # Get the longest ORFs from the sequences
# ha_orfs = longest_orfs(sequences)

# # Write the longest ORFS to disk:
# SeqIO.write(ha_orfs, 'H9N2_HA_CDS_all.fasta', 'fasta')


    

In [8]:

    

# # Perform multiple sequence alignment using Clustal Omega.
# # Uncomment this cell only if you need to run another multiple sequence alignment.

# gene = 'HA'

# in_file = "H9N2_%s_CDS_all.fasta" % gene
# out_file = "H9N2_%s_CDS_all_Aligned.fasta" % gene
# cline = ClustalOmegaCommandline(infile=in_file, outfile=out_file, verbose=True, auto=True, force=True)
# cline()


    

In [9]:

    

# Read in the aligned sequences

gene = "HA"
genes = [s for s in AlignIO.read('H9N2_%s_CDS_all_Aligned.fasta' % gene, 'fasta') if 'nan' not in s.id]
genes


    

    
Out[9]:





[SeqRecord(seq=Seq('METKALIAILLMVTTSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY031275_D_China.Central_Galliformes', name='CY031275_D_China.Central_Galliformes', description='CY031275_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTTLIAILLMVTASNADKICIGYQSTNSTETVDTLMENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF188339_W_N.Amer_Anseriformes', name='KF188339_W_N.Amer_Anseriformes', description='KF188339_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIAPIAILLMVTAGNADKICIGHQSTNSTETVDTLTENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF188287_D_Europe_Galliformes', name='KF188287_D_Europe_Galliformes', description='KF188287_D_Europe_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY005919_W_N.Amer_Anseriformes', name='CY005919_W_N.Amer_Anseriformes', description='CY005919_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLVAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY101406_W_N.Amer_Charadriiformes', name='CY101406_W_N.Amer_Charadriiformes', description='CY101406_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLVAILLMVTASNADKICIGYQSTNSTETVDTLIESNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY005986_W_N.Amer_Charadriiformes', name='CY005986_W_N.Amer_Charadriiformes', description='CY005986_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLVAILIMVTASNADKICIGYQSTNSTETVDTLIESNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY101507_W_N.Amer_Charadriiformes', name='CY101507_W_N.Amer_Charadriiformes', description='CY101507_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='AB303077_W_Europe_Anseriformes', name='AB303077_W_Europe_Anseriformes', description='AB303077_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVITASSADKICIGYQSTNSTETVDTLIESNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='AF156379_D_China.Central_Galliformes', name='AF156379_D_China.Central_Galliformes', description='AF156379_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTTSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HE802066_W_Europe_Anseriformes', name='HE802066_W_Europe_Anseriformes', description='HE802066_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTTSNADKICIGYQSTNSTETVDTLTENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='JX273569_D_Europe_Galliformes', name='JX273569_D_Europe_Galliformes', description='JX273569_D_Europe_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METRTLIAALLIVTTSNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY102188_W_N.Amer_Charadriiformes', name='CY102188_W_N.Amer_Charadriiformes', description='CY102188_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLITILLLVTTSNADKICIGYQSTNSTETVDTLAENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064377_D_E.Asia.E.China_Galliformes', name='DQ064377_D_E.Asia.E.China_Galliformes', description='DQ064377_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILVVTKTSNADKICIGYQSTNSTETVDTLVENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='GU053186_D_E.Asia.E.China_Galliformes', name='GU053186_D_E.Asia.E.China_Galliformes', description='GU053186_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTASNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB432938_D_China.Central_Anseriformes', name='AB432938_D_China.Central_Anseriformes', description='AB432938_D_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTASNADKICIGYQSTNSTETVGTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064360_D_China.Central_Galliformes', name='DQ064360_D_China.Central_Galliformes', description='DQ064360_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATAIITILLVITASYADKICIGYQSTNSTETVDTLTETNVPVTHTKDLLHTE...---', SingleLetterAlphabet()), id='JQ344328_D_SE.Asia_Anseriformes', name='JQ344328_D_SE.Asia_Anseriformes', description='JQ344328_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEQVSLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF800947_D_Middle.East_Galliformes', name='KF800947_D_Middle.East_Galliformes', description='KF800947_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHARELLHTE...---', SingleLetterAlphabet()), id='AF461510_D_E.Asia.E.China_Galliformes', name='AF461510_D_E.Asia.E.China_Galliformes', description='AF461510_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AY743216_D_E.Asia.E.China_Galliformes', name='AY743216_D_E.Asia.E.China_Galliformes', description='AY743216_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY081264_D_Middle.East_Galliformes', name='CY081264_D_Middle.East_Galliformes', description='CY081264_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ794817_D_Middle.East_Galliformes', name='FJ794817_D_Middle.East_Galliformes', description='FJ794817_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLLTILLVVTTSNADKICIGHQSTNSTETVDTLTETNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ419725_D_Middle.East_Galliformes', name='JQ419725_D_Middle.East_Galliformes', description='JQ419725_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEQVSLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497118_D_Middle.East_Galliformes', name='GQ497118_D_Middle.East_Galliformes', description='GQ497118_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLIVTAGNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461512_D_China.West_Galliformes', name='AF461512_D_China.West_Galliformes', description='AF461512_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITIILVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461528_D_China.West_Galliformes', name='AF461528_D_China.West_Galliformes', description='AF461528_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METRSLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF508556_D_S.Asia_Galliformes', name='AF508556_D_S.Asia_Galliformes', description='AF508556_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTESNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF508568_D_China.West_Galliformes', name='AF508568_D_China.West_Galliformes', description='AF508568_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTESNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF508571_D_E.Asia.E.China_Galliformes', name='AF508571_D_E.Asia.E.China_Galliformes', description='AF508571_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METRSLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AJ291392_D_S.Asia_Galliformes', name='AJ291392_D_S.Asia_Galliformes', description='AJ291392_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVLSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AY036880_D_China.Central_Galliformes', name='AY036880_D_China.Central_Galliformes', description='AY036880_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLMTILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064375_D_China.West_Galliformes', name='DQ064375_D_China.West_Galliformes', description='DQ064375_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ227352_D_China.West_Galliformes', name='DQ227352_D_China.West_Galliformes', description='DQ227352_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITIPLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF070733_D_China.West_Galliformes', name='EF070733_D_China.West_Galliformes', description='EF070733_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU053201_D_Middle.East_Galliformes', name='GU053201_D_Middle.East_Galliformes', description='GU053201_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METRSLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188299_D_S.Asia_Galliformes', name='KF188299_D_S.Asia_Galliformes', description='KF188299_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497120_D_Middle.East_Galliformes', name='GQ497120_D_Middle.East_Galliformes', description='GQ497120_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTASNADKICIGPYHTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497119_D_Middle.East_Galliformes', name='GQ497119_D_Middle.East_Galliformes', description='GQ497119_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY006021_W_E.Asia.E.China_Anseriformes', name='CY006021_W_E.Asia.E.China_Anseriformes', description='CY006021_W_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKFCIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ485208_D_China.Central_Galliformes', name='DQ485208_D_China.Central_Galliformes', description='DQ485208_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLVVTASNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY102633_W_N.Amer_Charadriiformes', name='CY102633_W_N.Amer_Charadriiformes', description='CY102633_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AY738451_D_Middle.East_Galliformes', name='AY738451_D_Middle.East_Galliformes', description='AY738451_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTESNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461515_D_E.Asia.E.China_Galliformes', name='AF461515_D_E.Asia.E.China_Galliformes', description='AF461515_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461518_D_E.Asia.E.China_Galliformes', name='AF461518_D_E.Asia.E.China_Galliformes', description='AF461518_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAEELLHTE...---', SingleLetterAlphabet()), id='AF461519_D_E.Asia.E.China_Galliformes', name='AF461519_D_E.Asia.E.China_Galliformes', description='AF461519_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLAVTISNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461523_D_E.Asia.E.China_Galliformes', name='AF461523_D_E.Asia.E.China_Galliformes', description='AF461523_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITIILVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461529_D_China.West_Galliformes', name='AF461529_D_China.West_Galliformes', description='AF461529_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461531_D_E.Asia.E.China_Galliformes', name='AF461531_D_E.Asia.E.China_Galliformes', description='AF461531_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTASNADKICISYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AY513715_D_E.Asia.E.China_Galliformes', name='AY513715_D_E.Asia.E.China_Galliformes', description='AY513715_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023976_D_China.Central_Galliformes', name='CY023976_D_China.Central_Galliformes', description='CY023976_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTIGNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY024568_D_China.Central_Galliformes', name='CY024568_D_China.Central_Galliformes', description='CY024568_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY024576_D_China.Central_Galliformes', name='CY024576_D_China.Central_Galliformes', description='CY024576_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASTADKICIGYQSTNSTETVDTLTESNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064355_D_E.Asia.E.China_Galliformes', name='DQ064355_D_E.Asia.E.China_Galliformes', description='DQ064355_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064368_D_China.Central_Galliformes', name='DQ064368_D_China.Central_Galliformes', description='DQ064368_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVLLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064372_D_E.Asia.E.China_Galliformes', name='DQ064372_D_E.Asia.E.China_Galliformes', description='DQ064372_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063510_D_Middle.East_Galliformes', name='EF063510_D_Middle.East_Galliformes', description='EF063510_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063511_D_Middle.East_Galliformes', name='EF063511_D_Middle.East_Galliformes', description='EF063511_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063512_D_Middle.East_Galliformes', name='EF063512_D_Middle.East_Galliformes', description='EF063512_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF492221_D_Middle.East_Galliformes', name='EF492221_D_Middle.East_Galliformes', description='EF492221_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILVVTETSNADKICIGYQSTNSTETVDTLVENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='EF620900_D_E.Asia.E.China_Galliformes', name='EF620900_D_E.Asia.E.China_Galliformes', description='EF620900_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU477248_D_Middle.East_Galliformes', name='EU477248_D_Middle.East_Galliformes', description='EU477248_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTAGNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU477249_D_Middle.East_Galliformes', name='EU477249_D_Middle.East_Galliformes', description='EU477249_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEQVSLMTILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497122_D_Middle.East_Galliformes', name='GQ497122_D_Middle.East_Galliformes', description='GQ497122_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497123_D_Middle.East_Galliformes', name='GQ497123_D_Middle.East_Galliformes', description='GQ497123_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY006023_D_E.Asia.E.China_Galliformes', name='CY006023_D_E.Asia.E.China_Galliformes', description='CY006023_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLYTE...---', SingleLetterAlphabet()), id='AB256674_D_E.Asia.E.China_Galliformes', name='AB256674_D_E.Asia.E.China_Galliformes', description='AB256674_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLIPILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB256690_D_E.Asia.E.China_Galliformes', name='AB256690_D_E.Asia.E.China_Galliformes', description='AB256690_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB256738_D_E.Asia.E.China_Galliformes', name='AB256738_D_E.Asia.E.China_Galliformes', description='AB256738_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB256746_D_E.Asia.E.China_Galliformes', name='AB256746_D_E.Asia.E.China_Galliformes', description='AB256746_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLAVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461524_D_E.Asia.E.China_Galliformes', name='AF461524_D_E.Asia.E.China_Galliformes', description='AF461524_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METLSLTTILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023104_D_China.Central_Galliformes', name='CY023104_D_China.Central_Galliformes', description='CY023104_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METLSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023920_D_China.Central_Anseriformes', name='CY023920_D_China.Central_Anseriformes', description='CY023920_D_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY024696_D_China.Central_Galliformes', name='CY024696_D_China.Central_Galliformes', description='CY024696_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METLSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY024704_D_China.Central_Galliformes', name='CY024704_D_China.Central_Galliformes', description='CY024704_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METLSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY024712_D_China.Central_Galliformes', name='CY024712_D_China.Central_Galliformes', description='CY024712_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATAIITILLVITASYADKICIGYQSTNSTETVDTLTETNVPVTHTKDLLHTE...---', SingleLetterAlphabet()), id='CY073800_D_SE.Asia_Anseriformes', name='CY073800_D_SE.Asia_Anseriformes', description='CY073800_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ064367_D_E.Asia.E.China_Galliformes', name='DQ064367_D_E.Asia.E.China_Galliformes', description='DQ064367_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ681216_D_E.Asia.E.China_Anseriformes', name='DQ681216_D_E.Asia.E.China_Anseriformes', description='DQ681216_D_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063513_D_Middle.East_Galliformes', name='EF063513_D_Middle.East_Galliformes', description='EF063513_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063514_D_Middle.East_Galliformes', name='EF063514_D_Middle.East_Galliformes', description='EF063514_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLLVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF154917_D_China.Central_Galliformes', name='EF154917_D_China.Central_Galliformes', description='EF154917_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVIASNADKICIGHQSTNSTETVDTLTETNVPVTHAQELLHTE...---', SingleLetterAlphabet()), id='EF154922_D_China.Central_Galliformes', name='EF154922_D_China.Central_Galliformes', description='EF154922_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF154923_D_China.Central_Galliformes', name='EF154923_D_China.Central_Galliformes', description='EF154923_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF154924_D_China.Central_Galliformes', name='EF154924_D_China.Central_Galliformes', description='EF154924_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTPLMTILLMVTAINADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF154925_D_China.Central_Galliformes', name='EF154925_D_China.Central_Galliformes', description='EF154925_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF492233_D_Middle.East_Galliformes', name='EF492233_D_Middle.East_Galliformes', description='EF492233_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='EF541419_D_SE.Asia_Anseriformes', name='EF541419_D_SE.Asia_Anseriformes', description='EF541419_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIAIIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='EF541420_D_SE.Asia_Anseriformes', name='EF541420_D_SE.Asia_Anseriformes', description='EF541420_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILVVTGTSDADKICIGYQSTNSTETVDTLVENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='EU253561_D_E.Asia.E.China_Galliformes', name='EU253561_D_E.Asia.E.China_Galliformes', description='EU253561_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATSLITILLLVTTSNADKICIGYQSTNPTETVDTLAENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190132_D_E.Asia.E.China_Galliformes', name='FJ190132_D_E.Asia.E.China_Galliformes', description='FJ190132_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTIALIAILLRAIAGNADKICIGYQSTNSTETVDTLTENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='JX273541_D_Europe_Galliformes', name='JX273541_D_Europe_Galliformes', description='JX273541_D_Europe_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188352_D_Middle.East_Galliformes', name='KF188352_D_Middle.East_Galliformes', description='KF188352_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188377_D_E.Asia.E.China_Anseriformes', name='KF188377_D_E.Asia.E.China_Anseriformes', description='KF188377_D_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTASNADKICIGHQSTNSTETVDTLTETNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497124_D_Middle.East_Galliformes', name='GQ497124_D_Middle.East_Galliformes', description='GQ497124_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELIHTE...---', SingleLetterAlphabet()), id='AY738454_D_Middle.East_Galliformes', name='AY738454_D_Middle.East_Galliformes', description='AY738454_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471884_D_China.Central_Galliformes', name='GU471884_D_China.Central_Galliformes', description='GU471884_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLVVTTSNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY144389_W_N.Amer_Charadriiformes', name='CY144389_W_N.Amer_Charadriiformes', description='CY144389_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLVVTTSNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY144397_W_N.Amer_Charadriiformes', name='CY144397_W_N.Amer_Charadriiformes', description='CY144397_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTISNADKICIGYQSTNSTETVDTLTENNVPVTHARELLHTE...---', SingleLetterAlphabet()), id='AB256714_D_E.Asia.E.China_Galliformes', name='AB256714_D_E.Asia.E.China_Galliformes', description='AB256714_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AY949989_D_E.Asia.E.China_Galliformes', name='AY949989_D_E.Asia.E.China_Galliformes', description='AY949989_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEALSPITILLVVAVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHAE...---', SingleLetterAlphabet()), id='CY023848_D_China.West_Galliformes', name='CY023848_D_China.West_Galliformes', description='CY023848_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKFCIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY076723_D_Middle.East_Galliformes', name='CY076723_D_Middle.East_Galliformes', description='CY076723_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ997451_D_E.Asia.E.China_Anseriformes', name='DQ997451_D_E.Asia.E.China_Anseriformes', description='DQ997451_D_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063515_D_Middle.East_Galliformes', name='EF063515_D_Middle.East_Galliformes', description='EF063515_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF492229_D_Middle.East_Galliformes', name='EF492229_D_Middle.East_Galliformes', description='EF492229_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVVTASNADKICIGHQSTNSTETVDTLTETNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU477246_D_Middle.East_Galliformes', name='EU477246_D_Middle.East_Galliformes', description='EU477246_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ384751_D_E.Asia.E.China_Galliformes', name='FJ384751_D_E.Asia.E.China_Galliformes', description='FJ384751_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU050554_D_Middle.East_Galliformes', name='GU050554_D_Middle.East_Galliformes', description='GU050554_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITALIAILLMTTTSNADKICIGYQSTNSTETVDTLTENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='JX273565_W_Europe_Charadriiformes', name='JX273565_W_Europe_Charadriiformes', description='JX273565_W_Europe_Charadriiformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497128_D_Middle.East_Galliformes', name='GQ497128_D_Middle.East_Galliformes', description='GQ497128_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLIIILLVVTTSNADKICIGHQSTNSTETVNTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU665421_D_S.Asia_Galliformes', name='EU665421_D_S.Asia_Galliformes', description='EU665421_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIALIAILL--TASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY004420_W_N.Amer_Charadriiformes', name='CY004420_W_N.Amer_Charadriiformes', description='CY004420_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MKALSPITILLVVAVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHAE...---', SingleLetterAlphabet()), id='CY023872_D_China.West_Galliformes', name='CY023872_D_China.West_Galliformes', description='CY023872_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKALSPITILLVVAVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHAE...---', SingleLetterAlphabet()), id='CY023880_D_China.West_Galliformes', name='CY023880_D_China.West_Galliformes', description='CY023880_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ681203_D_E.Asia.E.China_Anseriformes', name='DQ681203_D_E.Asia.E.China_Anseriformes', description='DQ681203_D_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METVSLMTILLVATASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FN600115_W_Middle.East_Anseriformes', name='FN600115_W_Middle.East_Anseriformes', description='FN600115_W_Middle.East_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVGTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HM008896_D_E.Asia.E.China_Galliformes', name='HM008896_D_E.Asia.E.China_Galliformes', description='HM008896_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METTSLITILLLVTTSNADKICIGYQSTNSTETVDTLAENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HM008898_D_E.Asia.E.China_Galliformes', name='HM008898_D_E.Asia.E.China_Galliformes', description='HM008898_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIIILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273542_D_S.Asia_Galliformes', name='JX273542_D_S.Asia_Galliformes', description='JX273542_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273552_D_S.Asia_Galliformes', name='JX273552_D_S.Asia_Galliformes', description='JX273552_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273553_D_S.Asia_Galliformes', name='JX273553_D_S.Asia_Galliformes', description='JX273553_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIALIAILLSTTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF188256_W_N.Amer_Charadriiformes', name='KF188256_W_N.Amer_Charadriiformes', description='KF188256_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEIIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ464352_D_E.Asia.E.China_Galliformes', name='DQ464352_D_E.Asia.E.China_Galliformes', description='DQ464352_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ465400_D_China.Central_Anseriformes', name='DQ465400_D_China.Central_Anseriformes', description='DQ465400_D_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVIALIAILGVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='DQ885991_D_E.Asia.E.China_Galliformes', name='DQ885991_D_E.Asia.E.China_Galliformes', description='DQ885991_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHARELLHTE...---', SingleLetterAlphabet()), id='EF063729_D_Middle.East_Galliformes', name='EF063729_D_Middle.East_Galliformes', description='EF063729_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLVATASNADKICIGHQSTNSTETVDTLTETNVPVTDAKELLHTE...---', SingleLetterAlphabet()), id='EF063730_D_Middle.East_Galliformes', name='EF063730_D_Middle.East_Galliformes', description='EF063730_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063731_D_Middle.East_Galliformes', name='EF063731_D_Middle.East_Galliformes', description='EF063731_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLISTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF492242_D_Middle.East_Galliformes', name='EF492242_D_Middle.East_Galliformes', description='EF492242_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU662946_D_E.Asia.E.China_Galliformes', name='EU662946_D_E.Asia.E.China_Galliformes', description='EU662946_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU662947_D_E.Asia.E.China_Galliformes', name='EU662947_D_E.Asia.E.China_Galliformes', description='EU662947_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLISTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273537_D_Middle.East_Anseriformes', name='JX273537_D_Middle.East_Anseriformes', description='JX273537_D_Middle.East_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273545_D_Middle.East_Galliformes', name='JX273545_D_Middle.East_Galliformes', description='JX273545_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLISTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273546_D_Middle.East_Galliformes', name='JX273546_D_Middle.East_Galliformes', description='JX273546_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188395_D_E.Asia.E.China_Galliformes', name='KF188395_D_E.Asia.E.China_Galliformes', description='KF188395_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188399_D_S.Asia_Galliformes', name='KF188399_D_S.Asia_Galliformes', description='KF188399_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF746835_D_E.Asia.E.China_Galliformes', name='KF746835_D_E.Asia.E.China_Galliformes', description='KF746835_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='CY038410_D_S.Asia_Galliformes', name='CY038410_D_S.Asia_Galliformes', description='CY038410_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METLSIITILLVITVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023416_D_China.Central_Galliformes', name='CY023416_D_China.Central_Galliformes', description='CY023416_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLIVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023424_D_China.Central_Galliformes', name='CY023424_D_China.Central_Galliformes', description='CY023424_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023608_D_E.Asia.E.China_Galliformes', name='CY023608_D_E.Asia.E.China_Galliformes', description='CY023608_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY023680_D_E.Asia.E.China_Galliformes', name='CY023680_D_E.Asia.E.China_Galliformes', description='CY023680_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLMTILLMVTAINADKICIGYQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='CY024504_D_China.Central_Galliformes', name='CY024504_D_China.Central_Galliformes', description='CY024504_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKITALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY043856_W_Europe_Anseriformes', name='CY043856_W_Europe_Anseriformes', description='CY043856_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063733_D_Middle.East_Galliformes', name='EF063733_D_Middle.East_Galliformes', description='EF063733_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF063734_D_Middle.East_Galliformes', name='EF063734_D_Middle.East_Galliformes', description='EF063734_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF154968_D_China.Central_Galliformes', name='EF154968_D_China.Central_Galliformes', description='EF154968_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLMTILLMVTAINADKICIGYQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='EF154976_D_China.Central_Galliformes', name='EF154976_D_China.Central_Galliformes', description='EF154976_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLISTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF492222_D_Middle.East_Galliformes', name='EF492222_D_Middle.East_Galliformes', description='EF492222_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLISTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EF492225_D_Middle.East_Galliformes', name='EF492225_D_Middle.East_Galliformes', description='EF492225_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU722362_D_China.Central_Galliformes', name='GU722362_D_China.Central_Galliformes', description='GU722362_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY038426_D_S.Asia_Galliformes', name='CY038426_D_S.Asia_Galliformes', description='CY038426_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEIIALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY043864_W_Europe_Anseriformes', name='CY043864_W_Europe_Anseriformes', description='CY043864_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MKALSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU722363_D_China.Central_Galliformes', name='GU722363_D_China.Central_Galliformes', description='GU722363_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEIISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ464728_D_Middle.East_Galliformes', name='FJ464728_D_Middle.East_Galliformes', description='FJ464728_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY038434_D_S.Asia_Galliformes', name='CY038434_D_S.Asia_Galliformes', description='CY038434_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTIALIAILLSTTANNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY144763_W_N.Amer_Charadriiformes', name='CY144763_W_N.Amer_Charadriiformes', description='CY144763_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MKTIALIAILLSTTANNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY077174_W_N.Amer_Charadriiformes', name='CY077174_W_N.Amer_Charadriiformes', description='CY077174_W_N.Amer_Charadriiformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEIIALIAILLATTTSNADKICIGYQSTNSTETVDTLMESNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='AB874675_W_E.Asia.E.China_Anseriformes', name='AB874675_W_E.Asia.E.China_Anseriformes', description='AB874675_W_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('----METISLLVITVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216081_D_China.West_Galliformes', name='EU216081_D_China.West_Galliformes', description='EU216081_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('----METISLLVITVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216082_D_China.West_Galliformes', name='EU216082_D_China.West_Galliformes', description='EU216082_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METI----SLIVITVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216083_D_China.West_Galliformes', name='EU216083_D_China.West_Galliformes', description='EU216083_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('----METISLLVKTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216084_D_China.West_Galliformes', name='EU216084_D_China.West_Galliformes', description='EU216084_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('----METISLLVITVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216086_D_China.West_Galliformes', name='EU216086_D_China.West_Galliformes', description='EU216086_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLLNMQLVVTVSNADEICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216087_D_China.West_Galliformes', name='EU216087_D_China.West_Galliformes', description='EU216087_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216089_D_China.West_Galliformes', name='EU216089_D_China.West_Galliformes', description='EU216089_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216090_D_China.West_Galliformes', name='EU216090_D_China.West_Galliformes', description='EU216090_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLLTMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU216091_D_China.West_Galliformes', name='EU216091_D_China.West_Galliformes', description='EU216091_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MKTISLITILLIVTTSNADKICIGHQSTNSTETVDTLAETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU477243_D_Middle.East_Galliformes', name='EU477243_D_Middle.East_Galliformes', description='EU477243_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU477539_D_Middle.East_Galliformes', name='EU477539_D_Middle.East_Galliformes', description='EU477539_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU644482_D_China.West_Anseriformes', name='EU644482_D_China.West_Anseriformes', description='EU644482_D_China.West_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU644485_D_China.West_Galliformes', name='EU644485_D_China.West_Galliformes', description='EU644485_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='FN600116_W_Middle.East_Anseriformes', name='FN600116_W_Middle.East_Anseriformes', description='FN600116_W_Middle.East_Anseriformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLIIILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTG...---', SingleLetterAlphabet()), id='JX273540_D_S.Asia_Galliformes', name='JX273540_D_S.Asia_Galliformes', description='JX273540_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTATSSADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='JX273568_W_Europe_Anseriformes', name='JX273568_W_Europe_Anseriformes', description='JX273568_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEAVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190151_D_E.Asia.E.China_Galliformes', name='FJ190151_D_E.Asia.E.China_Galliformes', description='FJ190151_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MAIIVLIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='GU194480_W_Europe_Anseriformes', name='GU194480_W_Europe_Anseriformes', description='GU194480_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='GU194481_W_Europe_Anseriformes', name='GU194481_W_Europe_Anseriformes', description='GU194481_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTGNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ497136_D_Middle.East_Galliformes', name='GQ497136_D_Middle.East_Galliformes', description='GQ497136_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190137_D_E.Asia.E.China_Galliformes', name='FJ190137_D_E.Asia.E.China_Galliformes', description='FJ190137_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ120559_D_Middle.East_Galliformes', name='GQ120559_D_Middle.East_Galliformes', description='GQ120559_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEVVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471894_D_China.Central_Galliformes', name='GU471894_D_China.Central_Galliformes', description='GU471894_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEKTTLIAILLMVTASNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KC693645_W_E.Asia.E.China_Anseriformes', name='KC693645_W_E.Asia.E.China_Anseriformes', description='KC693645_W_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEKIPLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY038450_D_S.Asia_Galliformes', name='CY038450_D_S.Asia_Galliformes', description='CY038450_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ464727_D_Middle.East_Galliformes', name='FJ464727_D_Middle.East_Galliformes', description='FJ464727_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEIIVLIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLYTE...---', SingleLetterAlphabet()), id='GU194486_W_Europe_Anseriformes', name='GU194486_W_Europe_Anseriformes', description='GU194486_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVASLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ534538_D_China.Central_Galliformes', name='FJ534538_D_China.Central_Galliformes', description='FJ534538_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='GU194487_W_Europe_Anseriformes', name='GU194487_W_Europe_Anseriformes', description='GU194487_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX456177_D_Middle.East_Galliformes', name='JX456177_D_Middle.East_Galliformes', description='JX456177_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTDTVDTLTETNIPVTQAKELLHTE...---', SingleLetterAlphabet()), id='CY038466_D_S.Asia_Galliformes', name='CY038466_D_S.Asia_Galliformes', description='CY038466_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MGKIPLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN540066_D_S.Asia_Galliformes', name='JN540066_D_S.Asia_Galliformes', description='JN540066_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTDTVDTLTETNIPVTQAKELLHTE...---', SingleLetterAlphabet()), id='CY038474_D_S.Asia_Galliformes', name='CY038474_D_S.Asia_Galliformes', description='CY038474_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190138_D_E.Asia.E.China_Galliformes', name='FJ190138_D_E.Asia.E.China_Galliformes', description='FJ190138_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU064951_D_S.Asia_Galliformes', name='GU064951_D_S.Asia_Galliformes', description='GU064951_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273543_D_Middle.East_Galliformes', name='JX273543_D_Middle.East_Galliformes', description='JX273543_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVITVSNADKICIGYQSTNSTETVNTLTEDNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188397_D_China.Central_Galliformes', name='KF188397_D_China.Central_Galliformes', description='KF188397_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVPLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259097_D_China.Central_Galliformes', name='KF259097_D_China.Central_Galliformes', description='KF259097_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLIVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259098_D_China.Central_Galliformes', name='KF259098_D_China.Central_Galliformes', description='KF259098_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GQ120552_D_Middle.East_Galliformes', name='GQ120552_D_Middle.East_Galliformes', description='GQ120552_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVTTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTG...---', SingleLetterAlphabet()), id='KF746867_D_China.Central_Galliformes', name='KF746867_D_China.Central_Galliformes', description='KF746867_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471880_D_China.Central_Galliformes', name='GU471880_D_China.Central_Galliformes', description='GU471880_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITMLLVATVINADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471881_D_China.Central_Galliformes', name='GU471881_D_China.Central_Galliformes', description='GU471881_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='GU194482_W_Europe_Anseriformes', name='GU194482_W_Europe_Anseriformes', description='GU194482_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMITASNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY079646_W_N.Amer_Anseriformes', name='CY079646_W_N.Amer_Anseriformes', description='CY079646_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLVTILLVVTTSNADKICIGHQSTNSTETVDTLTEANVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU071967_D_Middle.East_Galliformes', name='GU071967_D_Middle.East_Galliformes', description='GU071967_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLVTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU071968_D_Middle.East_Galliformes', name='GU071968_D_Middle.East_Galliformes', description='GU071968_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLMVTTSDADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY157025_W_N.Amer_Anseriformes', name='CY157025_W_N.Amer_Anseriformes', description='CY157025_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX456179_D_Middle.East_Galliformes', name='JX456179_D_Middle.East_Galliformes', description='JX456179_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC757788_D_S.Asia_Anseriformes', name='KC757788_D_S.Asia_Anseriformes', description='KC757788_D_S.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC757967_D_S.Asia_Galliformes', name='KC757967_D_S.Asia_Galliformes', description='KC757967_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU086234_D_E.Asia.E.China_Galliformes', name='GU086234_D_E.Asia.E.China_Galliformes', description='GU086234_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKSIVLIAILLVATTSNADKICIGYQSTNSTETVDTLIESNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='AB545591_D_SE.Asia_Anseriformes', name='AB545591_D_SE.Asia_Anseriformes', description='AB545591_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLTENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='HE802723_W_Europe_Anseriformes', name='HE802723_W_Europe_Anseriformes', description='HE802723_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTTGNADKICVGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273549_D_S.Asia_Galliformes', name='JX273549_D_S.Asia_Galliformes', description='JX273549_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLITILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF188249_D_S.Asia_Galliformes', name='KF188249_D_S.Asia_Galliformes', description='KF188249_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVLLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259108_D_China.Central_Galliformes', name='KF259108_D_China.Central_Galliformes', description='KF259108_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY116614_W_Europe_Anseriformes', name='CY116614_W_Europe_Anseriformes', description='CY116614_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY116616_W_Europe_Anseriformes', name='CY116616_W_Europe_Anseriformes', description='CY116616_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY116618_W_Europe_Anseriformes', name='CY116618_W_Europe_Anseriformes', description='CY116618_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY116620_W_Europe_Anseriformes', name='CY116620_W_Europe_Anseriformes', description='CY116620_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF746819_D_E.Asia.E.China_Galliformes', name='KF746819_D_E.Asia.E.China_Galliformes', description='KF746819_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLGVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471868_D_E.Asia.E.China_Galliformes', name='GU471868_D_E.Asia.E.China_Galliformes', description='GU471868_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITMLLVATVINADEICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471870_D_E.Asia.E.China_Galliformes', name='GU471870_D_E.Asia.E.China_Galliformes', description='GU471870_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471803_D_China.West_Galliformes', name='GU471803_D_China.West_Galliformes', description='GU471803_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY087171_D_China.West_Galliformes', name='CY087171_D_China.West_Galliformes', description='CY087171_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY087179_D_China.West_Galliformes', name='CY087179_D_China.West_Galliformes', description='CY087179_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY087187_D_China.West_Anseriformes', name='CY087187_D_China.West_Anseriformes', description='CY087187_D_China.West_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471800_D_China.West_Galliformes', name='GU471800_D_China.West_Galliformes', description='GU471800_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNAGKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU471804_D_China.West_Galliformes', name='GU471804_D_China.West_Galliformes', description='GU471804_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF746843_D_China.Central_Galliformes', name='KF746843_D_China.Central_Galliformes', description='KF746843_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLIATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF746769_D_E.Asia.E.China_Galliformes', name='KF746769_D_E.Asia.E.China_Galliformes', description='KF746769_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLMATTSNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY157502_W_N.Amer_Anseriformes', name='CY157502_W_N.Amer_Anseriformes', description='CY157502_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLMVTTSNADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY157510_W_N.Amer_Anseriformes', name='CY157510_W_N.Amer_Anseriformes', description='CY157510_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNIPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JN540074_D_S.Asia_Galliformes', name='JN540074_D_S.Asia_Galliformes', description='JN540074_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTTLIAILLMATASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY097630_W_N.Amer_Anseriformes', name='CY097630_W_N.Amer_Anseriformes', description='CY097630_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY146513_W_N.Amer_Anseriformes', name='CY146513_W_N.Amer_Anseriformes', description='CY146513_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLLITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC757999_D_S.Asia_Galliformes', name='KC757999_D_S.Asia_Galliformes', description='KC757999_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC296446_D_China.Central_Galliformes', name='KC296446_D_China.Central_Galliformes', description='KC296446_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTDTVDTLTETNIPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JQ905259_D_S.Asia_Galliformes', name='JQ905259_D_S.Asia_Galliformes', description='JQ905259_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKSIALIAILLVTTSSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='AB569975_D_SE.Asia_Anseriformes', name='AB569975_D_SE.Asia_Anseriformes', description='AB569975_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVITTSNADRICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273547_D_S.Asia_Galliformes', name='JX273547_D_S.Asia_Galliformes', description='JX273547_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVITTSNADRICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273548_D_S.Asia_Galliformes', name='JX273548_D_S.Asia_Galliformes', description='JX273548_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JX273557_D_Middle.East_Galliformes', name='JX273557_D_Middle.East_Galliformes', description='JX273557_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JX273558_D_Middle.East_Galliformes', name='JX273558_D_Middle.East_Galliformes', description='JX273558_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX448753_D_E.Asia.E.China_Galliformes', name='JX448753_D_E.Asia.E.China_Galliformes', description='JX448753_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVLLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259116_D_China.Central_Galliformes', name='KF259116_D_China.Central_Galliformes', description='KF259116_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVITVSNADKICIGYQSTNSTETVNTLTEDNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259122_D_China.Central_Galliformes', name='KF259122_D_China.Central_Galliformes', description='KF259122_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY130453_W_N.Amer_Anseriformes', name='CY130453_W_N.Amer_Anseriformes', description='CY130453_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC757832_D_S.Asia_Galliformes', name='KC757832_D_S.Asia_Galliformes', description='KC757832_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC758060_D_S.Asia_Galliformes', name='KC758060_D_S.Asia_Galliformes', description='KC758060_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY125750_W_N.Amer_Anseriformes', name='CY125750_W_N.Amer_Anseriformes', description='CY125750_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC758030_D_S.Asia_Galliformes', name='KC758030_D_S.Asia_Galliformes', description='KC758030_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY125733_W_N.Amer_Anseriformes', name='CY125733_W_N.Amer_Anseriformes', description='CY125733_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLTETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY125758_W_N.Amer_Anseriformes', name='CY125758_W_N.Amer_Anseriformes', description='CY125758_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTTSHADKICIGYQSTNSTETVDTLTENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF591855_D_SE.Asia_Anseriformes', name='KF591855_D_SE.Asia_Anseriformes', description='KF591855_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLMTILLLVTTSNADKICIGHQSTNSTETVDTLTENNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC757951_D_S.Asia_Galliformes', name='KC757951_D_S.Asia_Galliformes', description='KC757951_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC757991_D_S.Asia_Galliformes', name='KC757991_D_S.Asia_Galliformes', description='KC757991_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLITILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX310065_D_S.Asia_Galliformes', name='JX310065_D_S.Asia_Galliformes', description='JX310065_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MATISLITILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX310066_D_S.Asia_Galliformes', name='JX310066_D_S.Asia_Galliformes', description='JX310066_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLITILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX310067_D_S.Asia_Galliformes', name='JX310067_D_S.Asia_Galliformes', description='JX310067_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC757855_D_S.Asia_Galliformes', name='KC757855_D_S.Asia_Galliformes', description='KC757855_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILMTILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY133373_W_N.Amer_Anseriformes', name='CY133373_W_N.Amer_Anseriformes', description='CY133373_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLIAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX456180_D_Middle.East_Galliformes', name='JX456180_D_Middle.East_Galliformes', description='JX456180_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY133633_W_N.Amer_Anseriformes', name='CY133633_W_N.Amer_Anseriformes', description='CY133633_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF800938_D_Middle.East_Galliformes', name='KF800938_D_Middle.East_Galliformes', description='KF800938_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX456182_D_Middle.East_Galliformes', name='JX456182_D_Middle.East_Galliformes', description='JX456182_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN653611_D_E.Asia.E.China_Galliformes', name='JN653611_D_E.Asia.E.China_Galliformes', description='JN653611_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC757840_D_S.Asia_Galliformes', name='KC757840_D_S.Asia_Galliformes', description='KC757840_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KJ419947_D_E.Asia.E.China_Galliformes', name='KJ419947_D_E.Asia.E.China_Galliformes', description='KJ419947_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC758015_D_S.Asia_Galliformes', name='KC758015_D_S.Asia_Galliformes', description='KC758015_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN828570_D_Middle.East_Galliformes', name='JN828570_D_Middle.East_Galliformes', description='JN828570_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTTSNADRICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX273551_D_S.Asia_Galliformes', name='JX273551_D_S.Asia_Galliformes', description='JX273551_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JX273561_D_Middle.East_Galliformes', name='JX273561_D_Middle.East_Galliformes', description='JX273561_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MGAISLMTILLVVTTSNADKICIGHQSTNSTETVNTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JX273562_D_Middle.East_Galliformes', name='JX273562_D_Middle.East_Galliformes', description='JX273562_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIVILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='JX273570_D_Europe_Galliformes', name='JX273570_D_Europe_Galliformes', description='JX273570_D_Europe_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC757893_D_S.Asia_Galliformes', name='KC757893_D_S.Asia_Galliformes', description='KC757893_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVTLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC758106_D_S.Asia_Galliformes', name='KC758106_D_S.Asia_Galliformes', description='KC758106_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='KC555089_D_Middle.East_Anseriformes', name='KC555089_D_Middle.East_Anseriformes', description='KC555089_D_Middle.East_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC555097_D_Middle.East_Galliformes', name='KC555097_D_Middle.East_Galliformes', description='KC555097_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLTTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ440373_D_Middle.East_Galliformes', name='JQ440373_D_Middle.East_Galliformes', description='JQ440373_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLRAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KJ013297_W_E.Asia.E.China_Anseriformes', name='KJ013297_W_E.Asia.E.China_Anseriformes', description='KJ013297_W_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY157518_W_N.Amer_Anseriformes', name='CY157518_W_N.Amer_Anseriformes', description='CY157518_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971949_W_China.Central_Anseriformes', name='KF971949_W_China.Central_Anseriformes', description='KF971949_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971957_W_China.Central_Anseriformes', name='KF971957_W_China.Central_Anseriformes', description='KF971957_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971965_W_China.Central_Anseriformes', name='KF971965_W_China.Central_Anseriformes', description='KF971965_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971973_W_China.Central_Anseriformes', name='KF971973_W_China.Central_Anseriformes', description='KF971973_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971981_W_China.Central_Anseriformes', name='KF971981_W_China.Central_Anseriformes', description='KF971981_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLMENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971989_W_China.Central_Anseriformes', name='KF971989_W_China.Central_Anseriformes', description='KF971989_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLMENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF971997_W_China.Central_Anseriformes', name='KF971997_W_China.Central_Anseriformes', description='KF971997_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVATVSNADKICIGYQSTNSTETVDTLTESNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KJ419953_D_E.Asia.E.China_Galliformes', name='KJ419953_D_E.Asia.E.China_Galliformes', description='KJ419953_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX456181_D_Middle.East_Galliformes', name='JX456181_D_Middle.East_Galliformes', description='JX456181_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLIIILLLVATSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC757824_D_S.Asia_Galliformes', name='KC757824_D_S.Asia_Galliformes', description='KC757824_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METITLMTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTD...---', SingleLetterAlphabet()), id='KC758037_D_S.Asia_Galliformes', name='KC758037_D_S.Asia_Galliformes', description='KC758037_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY157526_W_N.Amer_Anseriformes', name='CY157526_W_N.Amer_Anseriformes', description='CY157526_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF714775_D_China.Central_Galliformes', name='KF714775_D_China.Central_Galliformes', description='KF714775_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLPTE...---', SingleLetterAlphabet()), id='JX294920_D_Middle.East_Galliformes', name='JX294920_D_Middle.East_Galliformes', description='JX294920_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLPTE...---', SingleLetterAlphabet()), id='JX294921_D_Middle.East_Galliformes', name='JX294921_D_Middle.East_Galliformes', description='JX294921_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTSSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF998208_D_Middle.East_Galliformes', name='KF998208_D_Middle.East_Galliformes', description='KF998208_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972005_W_China.Central_Anseriformes', name='KF972005_W_China.Central_Anseriformes', description='KF972005_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972013_W_China.Central_Anseriformes', name='KF972013_W_China.Central_Anseriformes', description='KF972013_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972021_W_China.Central_Anseriformes', name='KF972021_W_China.Central_Anseriformes', description='KF972021_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLXENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972029_W_China.Central_Anseriformes', name='KF972029_W_China.Central_Anseriformes', description='KF972029_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972037_W_China.Central_Anseriformes', name='KF972037_W_China.Central_Anseriformes', description='KF972037_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972045_W_China.Central_Anseriformes', name='KF972045_W_China.Central_Anseriformes', description='KF972045_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972053_W_China.Central_Anseriformes', name='KF972053_W_China.Central_Anseriformes', description='KF972053_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972061_W_China.Central_Anseriformes', name='KF972061_W_China.Central_Anseriformes', description='KF972061_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLMENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972069_W_China.Central_Anseriformes', name='KF972069_W_China.Central_Anseriformes', description='KF972069_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLMENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972077_W_China.Central_Anseriformes', name='KF972077_W_China.Central_Anseriformes', description='KF972077_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972085_W_China.Central_Anseriformes', name='KF972085_W_China.Central_Anseriformes', description='KF972085_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972093_W_China.Central_Anseriformes', name='KF972093_W_China.Central_Anseriformes', description='KF972093_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972101_W_China.Central_Anseriformes', name='KF972101_W_China.Central_Anseriformes', description='KF972101_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972109_W_China.Central_Anseriformes', name='KF972109_W_China.Central_Anseriformes', description='KF972109_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITTLIAILLMVTASNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KF972117_W_China.Central_Anseriformes', name='KF972117_W_China.Central_Anseriformes', description='KF972117_W_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLPTE...---', SingleLetterAlphabet()), id='JX294922_D_Middle.East_Galliformes', name='JX294922_D_Middle.East_Galliformes', description='JX294922_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX912984_D_Middle.East_Galliformes', name='JX912984_D_Middle.East_Galliformes', description='JX912984_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVCNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC920697_D_E.Asia.E.China_Galliformes', name='KC920697_D_E.Asia.E.China_Galliformes', description='KC920697_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF715244_D_China.West_Galliformes', name='KF715244_D_China.West_Galliformes', description='KF715244_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX912990_D_Middle.East_Galliformes', name='JX912990_D_Middle.East_Galliformes', description='JX912990_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF258174_D_Middle.East_Galliformes', name='KF258174_D_Middle.East_Galliformes', description='KF258174_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADNICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881394_D_Middle.East_Galliformes', name='KF881394_D_Middle.East_Galliformes', description='KF881394_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF998210_D_Middle.East_Galliformes', name='KF998210_D_Middle.East_Galliformes', description='KF998210_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLTTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF998211_D_Middle.East_Galliformes', name='KF998211_D_Middle.East_Galliformes', description='KF998211_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC920696_D_E.Asia.E.China_Galliformes', name='KC920696_D_E.Asia.E.China_Galliformes', description='KC920696_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881475_D_Middle.East_Galliformes', name='KF881475_D_Middle.East_Galliformes', description='KF881475_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881732_D_Middle.East_Galliformes', name='KF881732_D_Middle.East_Galliformes', description='KF881732_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF998214_D_Middle.East_Galliformes', name='KF998214_D_Middle.East_Galliformes', description='KF998214_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLVVTGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259143_D_China.Central_Galliformes', name='KF259143_D_China.Central_Galliformes', description='KF259143_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLVITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259144_D_China.Central_Galliformes', name='KF259144_D_China.Central_Galliformes', description='KF259144_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLVITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259147_D_China.Central_Galliformes', name='KF259147_D_China.Central_Galliformes', description='KF259147_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLVITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTG...---', SingleLetterAlphabet()), id='KF259148_D_China.Central_Galliformes', name='KF259148_D_China.Central_Galliformes', description='KF259148_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLVITGNNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259156_D_China.Central_Galliformes', name='KF259156_D_China.Central_Galliformes', description='KF259156_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVTIITILLVITRSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259157_D_China.Central_Galliformes', name='KF259157_D_China.Central_Galliformes', description='KF259157_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVCNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC920691_D_E.Asia.E.China_Galliformes', name='KC920691_D_E.Asia.E.China_Galliformes', description='KC920691_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATILITILLTVATSSADKICIGYQSTNSTETVDTLIETNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY157534_W_N.Amer_Anseriformes', name='CY157534_W_N.Amer_Anseriformes', description='CY157534_W_N.Amer_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC879302_D_E.Asia.E.China_Galliformes', name='KC879302_D_E.Asia.E.China_Galliformes', description='KC879302_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLAVAASNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC767259_D_China.West_Galliformes', name='KC767259_D_China.West_Galliformes', description='KC767259_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLLVTVSNADKICIGYQSTNSTETVDTLTENDVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC879299_D_E.Asia.E.China_Galliformes', name='KC879299_D_E.Asia.E.China_Galliformes', description='KC879299_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLLVTVSNADKICIGYQSTNSTETVDTLTENDVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC879300_D_China.Central_Galliformes', name='KC879300_D_China.Central_Galliformes', description='KC879300_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF638575_D_China.West_Galliformes', name='KF638575_D_China.West_Galliformes', description='KF638575_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMIVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF258186_D_Middle.East_Galliformes', name='KF258186_D_Middle.East_Galliformes', description='KF258186_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF258191_D_Middle.East_Galliformes', name='KF258191_D_Middle.East_Galliformes', description='KF258191_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881640_D_Middle.East_Galliformes', name='KF881640_D_Middle.East_Galliformes', description='KF881640_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF638574_D_China.Central_Galliformes', name='KF638574_D_China.Central_Galliformes', description='KF638574_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF258183_D_Middle.East_Galliformes', name='KF258183_D_Middle.East_Galliformes', description='KF258183_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF258184_D_Middle.East_Galliformes', name='KF258184_D_Middle.East_Galliformes', description='KF258184_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF258190_D_Middle.East_Galliformes', name='KF258190_D_Middle.East_Galliformes', description='KF258190_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881378_D_Middle.East_Galliformes', name='KF881378_D_Middle.East_Galliformes', description='KF881378_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MRIIPLTTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881459_D_Middle.East_Galliformes', name='KF881459_D_Middle.East_Galliformes', description='KF881459_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MGIIPLMTVLLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881553_D_Middle.East_Galliformes', name='KF881553_D_Middle.East_Galliformes', description='KF881553_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MGIIPLMTILLLVTTNNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF881370_D_Middle.East_Galliformes', name='KF881370_D_Middle.East_Galliformes', description='KF881370_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLAITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB836739_D_SE.Asia_Galliformes', name='AB836739_D_SE.Asia_Galliformes', description='AB836739_D_SE.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEALSLITTLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KJ419949_D_E.Asia.E.China_Galliformes', name='KJ419949_D_E.Asia.E.China_Galliformes', description='KJ419949_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLAITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB841272_D_SE.Asia_Anseriformes', name='AB841272_D_SE.Asia_Anseriformes', description='AB841272_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259159_D_E.Asia.E.China_Galliformes', name='KF259159_D_E.Asia.E.China_Galliformes', description='KF259159_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259160_D_E.Asia.E.China_Galliformes', name='KF259160_D_E.Asia.E.China_Galliformes', description='KF259160_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259166_D_E.Asia.E.China_Galliformes', name='KF259166_D_E.Asia.E.China_Galliformes', description='KF259166_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHARELLHTE...---', SingleLetterAlphabet()), id='KF259169_D_E.Asia.E.China_Galliformes', name='KF259169_D_E.Asia.E.China_Galliformes', description='KF259169_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHARELLHTE...---', SingleLetterAlphabet()), id='KF259171_D_E.Asia.E.China_Galliformes', name='KF259171_D_E.Asia.E.China_Galliformes', description='KF259171_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259184_D_E.Asia.E.China_Galliformes', name='KF259184_D_E.Asia.E.China_Galliformes', description='KF259184_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF259186_D_E.Asia.E.China_Galliformes', name='KF259186_D_E.Asia.E.China_Galliformes', description='KF259186_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF297299_D_E.Asia.E.China_Galliformes', name='KF297299_D_E.Asia.E.China_Galliformes', description='KF297299_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX465626_D_Middle.East_Galliformes', name='JX465626_D_Middle.East_Galliformes', description='JX465626_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HM773438_D_E.Asia.E.China_Galliformes', name='HM773438_D_E.Asia.E.China_Galliformes', description='HM773438_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTASNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190124_D_China.Central_Galliformes', name='FJ190124_D_China.Central_Galliformes', description='FJ190124_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLRTILLVVTASNADKICIAYQSTNSTETVDTLTETNVPVTHATELLHTE...---', SingleLetterAlphabet()), id='KF313567_D_E.Asia.E.China_Galliformes', name='KF313567_D_E.Asia.E.China_Galliformes', description='KF313567_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEATSLITILLLVTTSNADKICIGYQSTNSTETVDTLAENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190129_D_E.Asia.E.China_Galliformes', name='FJ190129_D_E.Asia.E.China_Galliformes', description='FJ190129_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190150_D_China.West_Galliformes', name='FJ190150_D_China.West_Galliformes', description='FJ190150_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190123_D_China.Central_Galliformes', name='FJ190123_D_China.Central_Galliformes', description='FJ190123_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTASNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ190128_D_E.Asia.E.China_Galliformes', name='FJ190128_D_E.Asia.E.China_Galliformes', description='FJ190128_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLITILLLVTASNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF688983_D_E.Asia.E.China_Galliformes', name='KF688983_D_E.Asia.E.China_Galliformes', description='KF688983_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MDVVSLITIPLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF313559_D_E.Asia.E.China_Galliformes', name='KF313559_D_E.Asia.E.China_Galliformes', description='KF313559_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIIILLVVTTSNADKICIVHQSTNSTETVNTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='EU665423_D_S.Asia_Galliformes', name='EU665423_D_S.Asia_Galliformes', description='EU665423_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVASLITVLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HM773435_D_E.Asia.E.China_Galliformes', name='HM773435_D_E.Asia.E.China_Galliformes', description='HM773435_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='HM136574_W_Europe_Anseriformes', name='HM136574_W_Europe_Anseriformes', description='HM136574_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITVLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HM773436_D_E.Asia.E.China_Galliformes', name='HM773436_D_E.Asia.E.China_Galliformes', description='HM773436_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVLLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ710463_D_E.Asia.E.China_Galliformes', name='JQ710463_D_E.Asia.E.China_Galliformes', description='JQ710463_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIISLITILLSVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC986294_D_S.Asia_Galliformes', name='KC986294_D_S.Asia_Galliformes', description='KC986294_D_S.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLIATASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLQTE...---', SingleLetterAlphabet()), id='AB753177_D_SE.Asia_Galliformes', name='AB753177_D_SE.Asia_Galliformes', description='AB753177_D_SE.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ231866_D_E.Asia.E.China_Galliformes', name='FJ231866_D_E.Asia.E.China_Galliformes', description='FJ231866_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ434562_D_China.West_Galliformes', name='FJ434562_D_China.West_Galliformes', description='FJ434562_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVVTMSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ434572_D_E.Asia.E.China_Galliformes', name='FJ434572_D_E.Asia.E.China_Galliformes', description='FJ434572_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METVSLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ434586_D_E.Asia.E.China_Galliformes', name='FJ434586_D_E.Asia.E.China_Galliformes', description='FJ434586_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVVTTSNADKICIGHQSTNSTETVDTLAETNIPVTHAKELLHTE...VYN', SingleLetterAlphabet()), id='GU071977_D_Middle.East_Galliformes', name='GU071977_D_Middle.East_Galliformes', description='GU071977_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MKTISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='GU071980_D_Middle.East_Galliformes', name='GU071980_D_Middle.East_Galliformes', description='GU071980_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ434563_D_China.West_Galliformes', name='FJ434563_D_China.West_Galliformes', description='FJ434563_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ434564_D_China.West_Galliformes', name='FJ434564_D_China.West_Galliformes', description='FJ434564_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HQ326722_D_E.Asia.E.China_Galliformes', name='HQ326722_D_E.Asia.E.China_Galliformes', description='HQ326722_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='FJ434582_D_E.Asia.E.China_Galliformes', name='FJ434582_D_E.Asia.E.China_Galliformes', description='FJ434582_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF313561_D_China.Central_Galliformes', name='KF313561_D_China.Central_Galliformes', description='KF313561_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ973661_D_Middle.East_Galliformes', name='JQ973661_D_Middle.East_Galliformes', description='JQ973661_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MEVIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTK...---', SingleLetterAlphabet()), id='HQ221679_D_E.Asia.E.China_Galliformes', name='HQ221679_D_E.Asia.E.China_Galliformes', description='HQ221679_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='HM773434_D_E.Asia.E.China_Galliformes', name='HM773434_D_E.Asia.E.China_Galliformes', description='HM773434_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
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 SeqRecord(seq=Seq('MKSIVLIAILLVATTSNADKICIGYQSTNSTETVDTLIESNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='AB545593_D_SE.Asia_Anseriformes', name='AB545593_D_SE.Asia_Anseriformes', description='AB545593_D_SE.Asia_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVIALIAILVVTGTSNADKICIGYQSTNSTETVDTLVETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN852803_D_E.Asia.E.China_Galliformes', name='JN852803_D_E.Asia.E.China_Galliformes', description='JN852803_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MGIISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ254937_D_Middle.East_Galliformes', name='JQ254937_D_Middle.East_Galliformes', description='JQ254937_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ419718_D_Middle.East_Galliformes', name='JQ419718_D_Middle.East_Galliformes', description='JQ419718_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTMSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='CY080415_W_Europe_Anseriformes', name='CY080415_W_Europe_Anseriformes', description='CY080415_W_Europe_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITILLIATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB753192_D_SE.Asia_Galliformes', name='AB753192_D_SE.Asia_Galliformes', description='AB753192_D_SE.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVINADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AB753213_D_SE.Asia_Galliformes', name='AB753213_D_SE.Asia_Galliformes', description='AB753213_D_SE.Asia_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIPLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ419722_D_Middle.East_Galliformes', name='JQ419722_D_Middle.East_Galliformes', description='JQ419722_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METTSLITILLVVTTSNADKICIGHQSTNSTETVDTLTETNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ419723_D_Middle.East_Galliformes', name='JQ419723_D_Middle.East_Galliformes', description='JQ419723_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLIATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN683644_D_E.Asia.E.China_Galliformes', name='JN683644_D_E.Asia.E.China_Galliformes', description='JN683644_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMAILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN646748_D_Middle.East_Galliformes', name='JN646748_D_Middle.East_Galliformes', description='JN646748_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN683647_D_E.Asia.E.China_Galliformes', name='JN683647_D_E.Asia.E.China_Galliformes', description='JN683647_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803952_D_E.Asia.E.China_Galliformes', name='JN803952_D_E.Asia.E.China_Galliformes', description='JN803952_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803960_D_E.Asia.E.China_Galliformes', name='JN803960_D_E.Asia.E.China_Galliformes', description='JN803960_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803964_D_E.Asia.E.China_Galliformes', name='JN803964_D_E.Asia.E.China_Galliformes', description='JN803964_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803976_D_China.Central_Galliformes', name='JN803976_D_China.Central_Galliformes', description='JN803976_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803993_D_China.Central_Anseriformes', name='JN803993_D_China.Central_Anseriformes', description='JN803993_D_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803994_D_China.Central_Anseriformes', name='JN803994_D_China.Central_Anseriformes', description='JN803994_D_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNAHKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN803999_D_China.Central_Anseriformes', name='JN803999_D_China.Central_Anseriformes', description='JN803999_D_China.Central_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715003_D_E.Asia.E.China_Galliformes', name='JF715003_D_E.Asia.E.China_Galliformes', description='JF715003_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY093088_D_Middle.East_Galliformes', name='CY093088_D_Middle.East_Galliformes', description='CY093088_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY093096_D_Middle.East_Galliformes', name='CY093096_D_Middle.East_Galliformes', description='CY093096_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF714997_D_China.Central_Galliformes', name='JF714997_D_China.Central_Galliformes', description='JF714997_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF714998_D_China.Central_Galliformes', name='JF714998_D_China.Central_Galliformes', description='JF714998_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIISLMTVLLVVTTSNADKICIGHQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ254942_D_Middle.East_Galliformes', name='JQ254942_D_Middle.East_Galliformes', description='JQ254942_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ254945_D_Middle.East_Galliformes', name='JQ254945_D_Middle.East_Galliformes', description='JQ254945_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ254948_D_Middle.East_Galliformes', name='JQ254948_D_Middle.East_Galliformes', description='JQ254948_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVITTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ254952_D_Middle.East_Galliformes', name='JQ254952_D_Middle.East_Galliformes', description='JQ254952_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIISLMTVLLVVTTSNADKICIGHQSTNSTETVDTLTENNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ254954_D_Middle.East_Galliformes', name='JQ254954_D_Middle.East_Galliformes', description='JQ254954_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METIALIAILLLTTACNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='JQ609664_D_Europe_Galliformes', name='JQ609664_D_Europe_Galliformes', description='JQ609664_D_Europe_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITTLLAITTSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715033_D_China.Central_Galliformes', name='JF715033_D_China.Central_Galliformes', description='JF715033_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITTLLAVTTSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715036_D_E.Asia.E.China_Galliformes', name='JF715036_D_E.Asia.E.China_Galliformes', description='JF715036_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVITGSNADKIRIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715044_D_China.Central_Galliformes', name='JF715044_D_China.Central_Galliformes', description='JF715044_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLLITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715046_D_China.Central_Galliformes', name='JF715046_D_China.Central_Galliformes', description='JF715046_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715048_D_China.Central_Galliformes', name='JF715048_D_China.Central_Galliformes', description='JF715048_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLLITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715051_D_China.Central_Galliformes', name='JF715051_D_China.Central_Galliformes', description='JF715051_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JF715018_D_E.Asia.E.China_Galliformes', name='JF715018_D_E.Asia.E.China_Galliformes', description='JF715018_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX448760_D_E.Asia.E.China_Galliformes', name='JX448760_D_E.Asia.E.China_Galliformes', description='JX448760_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITTLLVITVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804504_D_E.Asia.E.China_Galliformes', name='JN804504_D_E.Asia.E.China_Galliformes', description='JN804504_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804513_D_China.West_Galliformes', name='JN804513_D_China.West_Galliformes', description='JN804513_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804515_D_China.West_Galliformes', name='JN804515_D_China.West_Galliformes', description='JN804515_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804520_D_China.West_Galliformes', name='JN804520_D_China.West_Galliformes', description='JN804520_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804521_D_China.West_Galliformes', name='JN804521_D_China.West_Galliformes', description='JN804521_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804523_D_China.West_Galliformes', name='JN804523_D_China.West_Galliformes', description='JN804523_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804525_D_China.West_Galliformes', name='JN804525_D_China.West_Galliformes', description='JN804525_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVATLITILLVITGNNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804526_D_China.West_Galliformes', name='JN804526_D_China.West_Galliformes', description='JN804526_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVATLITILLVITGNNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804527_D_China.West_Galliformes', name='JN804527_D_China.West_Galliformes', description='JN804527_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVLLMTTLLAITTSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804534_D_China.Central_Galliformes', name='JN804534_D_China.Central_Galliformes', description='JN804534_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804540_D_China.Central_Galliformes', name='JN804540_D_China.Central_Galliformes', description='JN804540_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLITMLLVATVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804542_D_China.West_Galliformes', name='JN804542_D_China.West_Galliformes', description='JN804542_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVLTVSNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804543_D_China.West_Galliformes', name='JN804543_D_China.West_Galliformes', description='JN804543_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVLTVSNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804544_D_China.West_Galliformes', name='JN804544_D_China.West_Galliformes', description='JN804544_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVLTVSNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804545_D_China.West_Galliformes', name='JN804545_D_China.West_Galliformes', description='JN804545_D_China.West_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVLTVSNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804547_D_China.West_Anseriformes', name='JN804547_D_China.West_Anseriformes', description='JN804547_D_China.West_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAATIITILLAITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JN804557_D_China.Central_Galliformes', name='JN804557_D_China.Central_Galliformes', description='JN804557_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITPLMTILLLVTTSNADKICIGHQSTNSTETVDTLAETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ906555_D_Middle.East_Galliformes', name='JQ906555_D_Middle.East_Galliformes', description='JQ906555_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIALIAILLVTTTSNADKICIGYQSTNSTETVDTLIENNVPVTHTKELLHTE...---', SingleLetterAlphabet()), id='KC162234_W_E.Asia.E.China_Anseriformes', name='KC162234_W_E.Asia.E.China_Anseriformes', description='KC162234_W_E.Asia.E.China_Anseriformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLTTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY110927_D_Middle.East_Galliformes', name='CY110927_D_Middle.East_Galliformes', description='CY110927_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLTTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='CY110928_D_Middle.East_Galliformes', name='CY110928_D_Middle.East_Galliformes', description='CY110928_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVITGSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ770133_D_China.Central_Galliformes', name='JQ770133_D_China.Central_Galliformes', description='JQ770133_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JQ973658_D_Middle.East_Galliformes', name='JQ973658_D_Middle.East_Galliformes', description='JQ973658_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEITSLMTILLVITTSSADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ973660_D_Middle.East_Galliformes', name='JQ973660_D_Middle.East_Galliformes', description='JQ973660_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JQ973652_D_Middle.East_Galliformes', name='JQ973652_D_Middle.East_Galliformes', description='JQ973652_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEPISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='JQ973653_D_Middle.East_Galliformes', name='JQ973653_D_Middle.East_Galliformes', description='JQ973653_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIISLMTVLLVVTTSNADKICIGHQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ973654_D_Middle.East_Galliformes', name='JQ973654_D_Middle.East_Galliformes', description='JQ973654_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVATVSYADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC417046_D_E.Asia.E.China_Galliformes', name='KC417046_D_E.Asia.E.China_Galliformes', description='KC417046_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLTTILLLVTTSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ906557_D_Middle.East_Galliformes', name='JQ906557_D_Middle.East_Galliformes', description='JQ906557_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIIPLMTVLLLVTSSNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JQ906558_D_Middle.East_Galliformes', name='JQ906558_D_Middle.East_Galliformes', description='JQ906558_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METASLMTILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KC817014_D_China.Central_Galliformes', name='KC817014_D_China.Central_Galliformes', description='KC817014_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITTLLAVTTSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX448765_D_E.Asia.E.China_Galliformes', name='JX448765_D_E.Asia.E.China_Galliformes', description='JX448765_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEVVSLITILLVVTVCNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='JX846585_D_China.Central_Galliformes', name='JX846585_D_China.Central_Galliformes', description='JX846585_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METVSLITILLVATISNADKICIGYQSTNSTETVDTLTENNVPVTHVKELLHTE...---', SingleLetterAlphabet()), id='KC951122_D_China.Central_Galliformes', name='KC951122_D_China.Central_Galliformes', description='KC951122_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEIISLMTVLLVVTTSNADKICIGHQSTNSTETVDTLTENNIPVTHAKELLHTE...---', SingleLetterAlphabet()), id='KF918709_D_Middle.East_Galliformes', name='KF918709_D_Middle.East_Galliformes', description='KF918709_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('MEAISLMTILLVVTTSNADKICIGHQSTNSTETVDTLTETNVPVTQAKELLHTE...---', SingleLetterAlphabet()), id='KF918708_D_Middle.East_Galliformes', name='KF918708_D_Middle.East_Galliformes', description='KF918708_D_Middle.East_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGHQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF156378_D_China.Central_Galliformes', name='AF156378_D_China.Central_Galliformes', description='AF156378_D_China.Central_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLITILLVVTASNADKICIGYQSTNSTETVDTLTETNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF156380_D_E.Asia.E.China_Galliformes', name='AF156380_D_E.Asia.E.China_Galliformes', description='AF156380_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[]),
 SeqRecord(seq=Seq('METISLIAILLVVTVSNADKICIGYQSTNSTETVDTLTENNVPVTHAKELLHTE...---', SingleLetterAlphabet()), id='AF461532_D_E.Asia.E.China_Galliformes', name='AF461532_D_E.Asia.E.China_Galliformes', description='AF461532_D_E.Asia.E.China_Galliformes <unknown description>', dbxrefs=[])]

In [11]:

    

df = pd.DataFrame(np.array(genes))

# Capture accession and wild or domestic status as an array.
labels_geo_wd = []
for sequence in genes:
    if 'nan' in sequence.id:
        pass
    else:
        sequence_id = sequence.id.split("_")
        label_wd = sequence_id[1]
        label_geo = sequence_id[2]
        label_geo_wd = label_geo + '-' +  label_wd 
        
        labels_wd.append(label_wd)
        labels_geo.append(label_geo)
        labels_geo_wd.append(label_geo_wd)
        
# Remove any positions that do not contain any variation
for column in df.columns:
    if len(np.unique(df[column].values)) == 1:
        del df[column]

df


    

    
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577 rows × 455 columns

In [13]:

    

print(len(df))
print(len(labels_geo_wd))
np.unique(labels_geo_wd)
np.unique(labels_geo_wd)


    

    




577
577






    
Out[13]:





array(['China.Central-D', 'China.Central-W', 'China.West-D',
       'E.Asia.E.China-D', 'E.Asia.E.China-W', 'Europe-D', 'Europe-W',
       'Middle.East-D', 'Middle.East-W', 'N.Amer-W', 'S.Asia-D',
       'SE.Asia-D'], 
      dtype='|S16')

In [16]:

    

from random import shuffle
# Encode the amino acids with categorial labels 1-24
le = LabelEncoder()
amino_acid_code = (list('ABCDEFGHIJKLMNPQRSTVWXY-'))
shuffle(amino_acid_code)
print(len(amino_acid_code))
le.fit(amino_acid_code)
a_encoded = le.transform(amino_acid_code)
# a_encoded

# Replace amino acids with integer numbers.
encode_dict = {letter:int(encode) for letter, encode in zip(amino_acid_code, a_encoded)}
# encode_dict
encoded_df = df.replace(to_replace=encode_dict.keys(), value=encode_dict.values())
encoded_df


    

    




24






    
Out[16]:






  

    

      

      
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In [28]:

    

# Add in the labels to the master df, then split by group
encoded_df['Label'] = labels_geo_wd
encoded_df['Geo Region'] = encoded_df['Label'].str.split('-').str[0]
encoded_df['Ecotype'] = encoded_df['Label'].str.split('-').str[1]

grouped_dfs = dict()
grouped_labels = dict()
for label, group in encoded_df.groupby('Geo Region'):
    grouped_dfs[label] = group
    grouped_labels[label] = group['Label'].values


    

In [36]:

    

print(Counter(grouped_labels['E.Asia.E.China']))
print(Counter(grouped_labels['Middle.East']))


    

    




Counter({'E.Asia.E.China-D': 115, 'E.Asia.E.China-W': 6})
Counter({'Middle.East-D': 144, 'Middle.East-W': 5})

In [22]:

    

# # Run 1000 runs of the Random Forest classifier, and average the feature importances.
# feature_importance_dict = {pos:[] for pos in encoded_df.columns}

# for i in range(1000):
#     rf = RandomForestClassifier()
#     rf.fit_transform(encoded_df, labels_wd)
#     for pos, importance in zip(encoded_df.columns, rf.feature_importances_):
#         feature_importance_dict[pos].append(importance)
        
# # Get the mean for each feature_importance
# mean_importances_wd = {pos:None for key in feature_importance_dict.keys()}

# for pos, importances in feature_importance_dict.items():
#     mean_importances_wd[pos] = np.mean(importances)


    

In [23]:

    

def run_rfa(data, labels, n_runs, scatter_color, analysis_name, gene_name):
    """
    This function runs the Random Forest Algorithm on an alignment.
    
    Inputs:
    - data: a pandas DataFrame with the amino acids aligned and encoded as integers.
    - labels: a list of labels
    - n_runs: the number of times the Random Forests are to be run.
    - scatter_color: the color of the scatterplot dots.
    - analysis_name: a string handle labelling the analysis.
    - gene_name: the name of the influenza gene.
    
    Outputs:
    - SAVE TO DISK: 
        - A scatter plot of Relative Feature Importance vs. Position in Alignment.
        - A CSV file of the relative feature importances.
    - RETURN: mean_importances: a dictionary of positions and the mean feature_importances.
    """
    feature_importances_dict = {pos:[] for pos in encoded_df.columns}
    permuted_importances = []
    
    labels_copy = deepcopy(labels)
    
    for i in range(n_runs):
        if i % 20 == 0:
            print("Currently at iteration {0}.".format(i))
        
        # Fit-transform based on ground truth labels.
        rf = RandomForestClassifier()
        rf.fit_transform(data, labels)
        for pos, importance in zip(data.columns, rf.feature_importances_):
            feature_importances_dict[pos].append(importance)
            
        # Fit-predict on shuffled labels.
        shuffle(labels_copy)
        rf_shuffled = RandomForestClassifier()
        rf_shuffled.fit_transform(data, labels_copy)
        
        for importance in rf_shuffled.feature_importances_:
            permuted_importances.append(importance)
            
    # This is where the permutation test is performed. 
    mean_importances = {pos:None for key in feature_importances_dict.keys()}
    threshold = mquantiles(permuted_importances, 0.95)[0]
    print("Threshold Importance: {0}".format(threshold))
    
    for pos, importances in feature_importances_dict.items():
        if np.mean(importances) > threshold:
            mean_importances[pos] = np.mean(importances)
        
    # Generate scatterplot
    plt.scatter(mean_importances.keys(), mean_importances.values(), color=scatter_color)
    plt.title('{0} \n Positional Importances for {1} Gene'.format(analysis_name, gene_name))
    plt.xlabel('Position in Amino Acid Alignment')
    plt.ylabel('Relative Feature Importance')
    plt.savefig('{0} {1} Positional Feature Importances.pdf'.format(analysis_name, gene_name))
    
    # Generate CSV file of ranked importances
    pos_importance = sorted(mean_importances.items(), key=lambda x:x[1])[::-1]
    pos_by_importance = [pos for (pos, score) in pos_importance]
    importances_df = pd.DataFrame(pos_importance)
    importances_df.columns=['Position', 'Relative Importance']
    importances_df.to_csv('{0} {1} Relative Importances.csv'.format(analysis_name, gene_name))

    return pos_importance, importances_df


    

In [24]:

    

def group_proportions_piecharts(counter, pos, groups, analysis_type, figsize):
    
    groups_letters = dict()
    for group in list(set(groups)):
        groups_letters[group] = [letter for (letter, state) in counter[pos].keys() if state == group]
    letters = set([letter for (letter, state) in counter[pos].keys()])

    group_proportions = dict()
    for group in list(set(groups)):
        group_proportions[group] = dict()
        
    for letter in letters:
        for group in group_proportions.keys():
            if letter in groups_letters[group]:
                group_proportions[group][letter] = counter[pos][(letter, group)]
            if letter not in groups_letters[group]:
                group_proportions[group][letter] = 0

    numgroups = len(set(groups))
    fig = plt.figure(figsize=figsize)
    sorted_groups = sorted(groups, key=lambda x: (x.split('-')[1], x.split('-')[0]) if '-' in x else x)
    for group in sorted_groups:
        
        if len(letters) < 3:
            bmap = brewer2mpl.get_map('Set3', 'qualitative', 3)
        elif len(letters) > 12:
            bmap = brewer2mpl.get_map('Set3', 'qualitative', 12)
        else:
            bmap = brewer2mpl.get_map('Set3', 'qualitative', len(letters))
        colors = bmap.mpl_colors

        num_cols = 2
        num_rows = numgroups // num_cols + 1
        position = sorted_groups.index(group) + 1
        
        diversity = sdi(group_proportions[group])
        ax = fig.add_subplot(num_rows, num_cols, position)
        plt.pie(group_proportions[group].values(), colors=colors, radius=10)
        plt.axis('equal')
        plt.title('{0}, Pos {1}, \n n={2}, sdi={3}'.format(group, pos, sum(group_proportions[group].values()), round(diversity, 3)))
    
    plt.legend(labels=letters, loc="center left", bbox_to_anchor=(1.0, 0.5), ncol=2)
    plt.savefig('{0} {1} Position {2} Proportion of Amino Acids.pdf'.format(analysis_type, gene, pos), bbox_inches='tight')
    plt.show()


    

In [25]:

    

def normalize_counts(counter):
    # Custom function to normalize counts to a proportion from 0 to 1.0.
    total = sum(counter.values())
    
    if total != 0:
        normalized_counter = {key:float(value/total) for key, value in counter.items()}
    
    else:
        normalized_counter = {key:1 for key, value in counter.items()}
    return normalized_counter


    

In [26]:

    

def cumulative_importances(importances_df, analysis_name):
    importances_df.cumsum()['Relative Importance'].plot()
    plt.xlabel('Rank Order')
    plt.ylabel('Cumulative Importance')
    plt.title('{0} Cumulative Importances of\nRanked Amino Acid Positions'.format(analysis_name))
    plt.savefig('{0} Cumulative Importances.pdf'.format(analysis_name))


    

In [27]:

    

pos_importance_ecotype, importances_ecotype = run_rfa(data=encoded_df, 
                                                         labels=labels_wd, 
                                                         n_runs=1000, 
                                                         scatter_color='r', 
                                                         analysis_name='Ecotype', 
                                                         gene_name='HA')


    

    




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In [28]:

    

cumulative_importances(importances_ecotype, 'Ecotype')


    

In [29]:

    

counts_wd = dict()
for pos in df.columns:
    counts_wd[pos] = Counter(zip(df[pos].values, labels_wd))

for pos, importance in pos_importance_ecotype[0:10]:
    group_proportions_piecharts(counts_wd, pos, list(set(labels_wd)), 'Ecotype', figsize=(6, 6))


    

In [30]:

    

pos_importance_geo, importances_geo = run_rfa(data=encoded_df, labels=labels_geo, n_runs=1000, scatter_color='r', analysis_name='Geography', gene_name='HA')


    

    




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In [31]:

    

cumulative_importances(importances_geo, 'Geography')


    

In [32]:

    

counts_geo = dict()
for pos in df.columns:
    counts_geo[pos] = Counter(zip(df[pos].values, labels_geo))

for pos, importance in pos_importance_geo[0:10]:
    group_proportions_piecharts(counts_geo, pos, list(set(labels_geo)), 'Geography', figsize=(6, 17))


    

In [33]:

    

pos_importance_species, importances_species = run_rfa(data=encoded_df, labels=labels_species, n_runs=1000, scatter_color='r', analysis_name='Bird Order', gene_name='HA')

counts_species = dict()
for pos in df.columns:
    counts_species[pos] = Counter(zip(df[pos].values, labels_species))


    

    




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In [34]:

    

cumulative_importances(importances_species, 'Bird Order')


    

In [35]:

    

for pos, importance in pos_importance_species[0:10]:
    group_proportions_piecharts(counts_species, pos, list(set(labels_species)), 'Bird Order', figsize=(6,6))


    

In [36]:

    

pos_importance_wd_species, importances_wd_species = run_rfa(data=encoded_df, labels=labels_wd_species, n_runs=1000, scatter_color='r', analysis_name='Ecotype and Bird Order', gene_name='HA')


    

    




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In [37]:

    

cumulative_importances(importances_wd_species, 'Ecotype and Bird Order')


    

In [38]:

    

counts_wd_species = dict()
for pos in df.columns:
    counts_wd_species[pos] = Counter(zip(df[pos].values, labels_wd_species))

for pos, importance in pos_importance_wd_species[0:10]:
    group_proportions_piecharts(counts_wd_species, pos, list(set(labels_wd_species)), 'Ecotype and Bird Order', figsize=(6,10))


    

In [39]:

    

pos_importance_wd_geo, importances_wd_geo = run_rfa(data=encoded_df, labels=labels_wd_geo, n_runs=1000, scatter_color='r', analysis_name='Ecotype and Geography', gene_name='HA')


    

    




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In [40]:

    

cumulative_importances(importances_wd_geo, 'Ecotype and Geography')


    

In [75]:

    

counts_wd_geo = dict()
for pos in df.columns:
    counts_wd_geo[pos] = Counter(zip(df[pos].values, labels_wd_geo))

# For completeness, we add in the following label
missing_labels = ['W-China.West', 'W-SE.Asia', 'D-N.Amer', 'W-S.Asia']

for pos, importance in pos_importance_wd_geo[0:10]:
    group_proportions_piecharts(counts_wd_geo, pos, set(labels_wd_geo), 'Ecotype and Geography', 
                                figsize=(6, 30))


    

In [42]:

    

pos_importance_wd_geo_species, importances_wd_geo_species = run_rfa(data=encoded_df, 
                                                                    labels=labels_wd_geo_species, 
                                                                    n_runs=1000, 
                                                                    scatter_color='r', 
                                                                    analysis_name='Ecotype, Geography and Bird Order', 
                                                                    gene_name='HA')


    

    




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In [43]:

    

cumulative_importances(importances_wd_geo_species, 'Ecotype, Geography and Bird Order')


    

In [76]:

    

# set(labels_wd), set(labels_geo), set(labels_species)

# complete_labels = []
# for wd in set(labels_wd):
#     for geo in set(labels_geo):
#         for species in set(labels_species):
#             complete_labels.append(wd + "_" + geo + "_" + species)
            
# complete_labels


    

In [73]:

    

counts_wd_geo_species = dict()
for pos in df.columns:
    counts_wd_geo_species[pos] = Counter(zip(df[pos].values, labels_wd_geo_species))

for pos, importance in pos_importance_wd_geo_species[0:10]:
    group_proportions_piecharts(counts_wd_geo_species, pos, set(labels_wd_geo_species), 'Ecotype, Geography and Bird Order', 
                                figsize=(10, 55))


    

In [ ]: