In [2]:

    

from rna_tools.rna_tools_lib import *


    

In [5]:

    

s = RNAStructure('../rna_tools/input/1I9V_A.pdb')


    

In [6]:

    

s.is_pdb()


    

    
Out[6]:





True

In [1]:

    

from rna_tools.tools.rna_alignment import rna_alignment


    

In [2]:

    

alignment = rna_alignment.RNAalignment(fetch="RF00167")


    

In [4]:

    

alignment.plot()


    

    




Rchie: plot saved to rchie.png






    
Out[4]:

In [5]:

    

alignment.cols[0:10]


    

    
Out[5]:





SingleLetterAlphabet() alignment with 133 rows and 10 columns
UUACAAUAUA X83878.1/168-267
---AAAAUAA AF270087.1/2580-2679
AAUCGUCUAC AL596165.1/154156-154057
AUAACUUAAA AL596170.1/223345-223246
AAUGAAUCAC AB008757.1/115-16
---GAAAUCA U51115.1/15592-15691
AAUCCGCUAC AL591975.1/251119-251020
AUAACUUAAA AL591981.1/205922-205823
GACAUAAUUA ABDP01000013.1/128838-128739
AGAUAAUAUA CP000764.1/271074-271175
CUUCGAAAAG AAEQ01000019.1/51159-51260
AGAUAAUAUA AAEK01000017.1/86437-86538
AAAGAAUAAU CP000001.1/309094-309195
AAAAUUGAAU CP000410.1/1642356-1642451
GUAUAAUCGC AAWP01000021.1/27378-27279
AAAAAGUUAA CP000721.1/2204674-2204778
CUCAGUCGAA CP000724.1/951516-951617
AAGUUACCGC AANE01000012.1/49153-49054
...
AUACAAAGUG CP003056.1/1737361-1737461