Alignment

set_characters_per_line 60
set_color_mode charge
set_conservation_threshold 0
accession_id EMBL:X56734 , nucleotide_position_1

accession_id EMBL:X56734 , amino_position_1

res_num 1 0=NaN 12=1 19=NaN 28=8 225=207 284=NaN 285=266 394=NaN 399=375 493=469 , PDB_resn_1
res_secstru 0=_ 44=E 49=_ 67=H 76=_ 91=H 105=_ 109=E 114=_ 130=H 148=_ 150=E 155=_ 162=H 170=_ 175=H 193=_ 197=E 200=_ 204=H 214=_ 233=H 265=_ 266=E 273=_ 283=H 284=_ 285=H 309=_ 311=H 320=_ 327=H 335=_ 339=E 344=_ 347=E 353=_ 369=E 373=_ 400=H 414=_ 417=E 422=_ 433=H 439=_ 441=H 463=_ 464=E 470=_ , PDB_resn_1
res_chain 0=_ 12=A 19=_ 28=A 284=_ 285=A 394=_ 399=A , PDB_resn_1
accession_id EMBL:X56734 , PDB_resn_1


#----------

# refering to nucleotide positions
new_nucleotide_selection nucleotide_position_1/my_selection, group, 150-162


# refering to amino acid positions
new_selection amino_position_1/my_selection, group, 46-50


# refering to PDB resn
project_coordinates PDB:1CBG_A , PDB_resn_1
new_selection PDB_resn_1/my_selection, group, 25:A-29:A
# Deleted commands:  [load , translate_cds ]

#end_of_script_1378667379568_

	====>
nucleotide_position_1	MDFIVAIFALFVISSFTITSTNAVEASTLLDIGNLSRSSFPRGFIFGAGSSAYQFEGAVN
amino_position_1	MDFIVAIFALFVISSFTITSTNAVEASTLLDIGNLSRSSFPRGFIFGAGSSAYQFEGAVN
PDB_resn_1	mdfivaifalfvISSFTITstnaveastLLDIGNLSRSSFPRGFIFGAGSSAYQFEGAVN ----- - -- --- - - -- - -- - - --
	\/\/\/\/\ \/\/\/\/\/\/\/ ====>
	EGGRGPSIWDTFTHKYPEKIRDGSNADITVDQYHRYKEDVGIMKDQNMDSYRFSISWPRI
	EGGRGPSIWDTFTHKYPEKIRDGSNADITVDQYHRYKEDVGIMKDQNMDSYRFSISWPRI
	EGGRGPSIWDTFTHKYPEKIRDGSNADITVDQYHRYKEDVGIMKDQNMDSYRFSISWPRI - - - -- - --- - - - - - -
	/\/\/\/\/\/\/\/\/\ ====> /\/\/\/\ \/\/\
	LPKGKLSGGINHEGIKYYNNLINELLANGIQPFVTLFHWDLPQVLEDEYGGFLNSGVIND
	LPKGKLSGGINHEGIKYYNNLINELLANGIQPFVTLFHWDLPQVLEDEYGGFLNSGVIND
	LPKGKLSGGINHEGIKYYNNLINELLANGIQPFVTLFHWDLPQVLEDEYGGFLNSGVIND - - - - - - - - - ------
	/\/\/\/\/\/\/ ==> /\/\/\/\/\ \/\/\/\
	FRDYTDLCFKEFGDRVRYWSTLNEPWVFSNSGYALGTNAPGRCSASNVAKPGDSGTGPYI
	FRDYTDLCFKEFGDRVRYWSTLNEPWVFSNSGYALGTNAPGRCSASNVAKPGDSGTGPYI
	FRDYTDLCFKEFGDRVRYWSTLNEPWVFSNSGYALGTNAPGRCSASNVAKPGDSGTGPYI -- -- - -- --- - - ------- -- -
	/\/\/\/\/\/\/\/\/\/\/\/\/ ======> \ \/\/\/\/\/\/\/\
	VTHNQILAHAEAVHVYKTKYQAYQKGKIGITLVSNWLMPLDDNSIPDIKAAERSLDFQFG
	VTHNQILAHAEAVHVYKTKYQAYQKGKIGITLVSNWLMPLDDNSIPDIKAAERSLDFQFG
	VTHNQILAHAEAVHVYKTKYQAYQKGKIGITLVSNWLMPLDDNSiPDIKAAERSLDFQFG -- - - - --- - - - - -- ----- - -- - - --
	/\/\/\/\/ \/\/\/\/\ \/\/\/\/ ====> =====>
	LFMEQLTTGDYSKSMRRIVKNRLPKFSKFESSLVNGSFDFIGINYYSSSYISNAPSHGNA
	LFMEQLTTGDYSKSMRRIVKNRLPKFSKFESSLVNGSFDFIGINYYSSSYISNAPSHGNA
	LFMEQLTTGDYSKSMRRIVKNRLPKFSKFESSLVNGSFDFIGINYYSSSYISNAPSHGNA - -- - - -- -- -- -- ---- - - - --- ---
	===> /\/\/\/\/\/\/\ ===
	KPSYSTNPMTNISFEKHGIPLGPRAASIWIYVYPYMFIQEDFEIFCYILKINITILQFSI
	KPSYSTNPMTNISFEKHGIPLGPRAASIWIYVYPYMFIQEDFEIFCYILKINITILQFSI
	KPSYSTNPMTNISFEKHGIPLGPRAASIWIYVYPymfiqEDFEIFCYILKINITILQFSI - --- ---- -- -- - - - --- ---------- ---------
	=> \/\/\/ \/\/\/\/\/\/\/\/\/\/\/ =====>
	TENGMNEFNDATLPVEEALLNTYRIDYYYRHLYYIRSAIRAGSNVKGFYAWSFLDCNEWF
	TENGMNEFNDATLPVEEALLNTYRIDYYYRHLYYIRSAIRAGSNVKGFYAWSFLDCNEWF
	TENGMNEFNDATLPVEEALLNTYRIDYYYRHLYYIRSAIRAGSNVKGFYAWSFLDCNEWF - - --- - - - --- -- - -- -- -- -

	AGFTVRFGLNFVDX
	AGFTVRFGLNFVDX
	AGFTVRFGLNFVDX - - - -

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Please cite Strap Render sequence alignments