The output is sent to the screen by default for the user to view, but it can write the results to a file.
The output highlights various differences or similarities between each of the sequences and a reference sequence by setting selected types of matches to a reference sequence to be '.' characters.
The reference sequence can be either the calculated consensus sequence (the default) or it can be one of the set of aligned sequences, specified by either the ordinal number of that sequence in the input file, or by its name.
The output sequences can be displayed in any of:
By using the -show option, all or parts of the sequences can be displayed:
A small table of the way these alignments are displayed illustrates this.
If we have a reference protein sequence of "III" and a sequence aligned to this of "ILW", then we have an identical matching residue, then a similar one (by the default BLOSUM62 matrix), then a dissimilar one.
The different methods of display would give the following:
Reference III All ILw Identical I.. Non-id .lW Similar Il. Dissimilar ..W
Changing the similar matches to lowercase can optionally be disabled by using the option -nosimilarcase.
The displayed sequence can be numbered by placing a ruler with ticks above the sequence.
The width of a line can be set. The width of a margin to the left of the sequences that shows the sequence names can be set.
Specified regions of the sequence can be displayed in uppercase to highlight them.
The output can be formatted for HTML, in which case specified regions of the sequence can be displayed in any valid HTML colours.
The cutoff for setting the case of the consensus is set by the qualifier -setcase. If the number of residues at that position that match the consensus value is greater than this, then the symbol is in uppercase, otherwise the symbol is in lowercase. By default, the value of setcase is set so that if there are more than 50% of residues identical to the consensus at that position, then the consensus is in uppercase.
To put all of the consensus symbols into uppercase or lowercase, make -setcase 0 or very large (try 100000?).
% showalign
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the input file for this example
Go to the output file for this example
% showalign -order=s
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -html -high '4-13 green 43-43 red 51-56 blue'
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% >showalign -nocon -norule -nonum -nobot -ref=1 -sb=10 -send=30
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -show=a
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -show=i
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -show=s
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -show=d
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -ref=1
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -nocon -ref=1 -sl -upper 9-15 -nosimilarcase
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
% showalign -order=a
Displays a multiple sequence alignment
Input sequence set: globins.msf
Output file [globins.showalign]:
Go to the output file for this example
Standard (Mandatory) qualifiers:
[-sequence] seqset The sequence alignment to be displayed.
[-outfile] outfile Output file name
Additional (Optional) qualifiers:
-matrix matrix This is the scoring matrix file used when
comparing sequences. By default it is the
file 'EBLOSUM62' (for proteins) or the file
'EDNAFULL' (for nucleic sequences). These
files are found in the 'data' directory of
the EMBOSS installation.
-refseq string If you give the number in the alignment or
the name of a sequence, it will be taken to
be the reference sequence. The reference
sequence is always show in full and is the
one against which all the other sequences
are compared. If this is set to 0 then the
consensus sequence will be used as the
reference sequence. By default the consensus
sequence is used as the reference sequence.
-[no]bottom boolean If this is true then the reference sequence
is displayed at the bottom of the alignment
as well as at the top.
-show menu What to show
-order menu Output order of the sequences
-[no]similarcase boolean If this is set True, then when -show is set
to 'Similarities' or 'Non-identities' and a
residue is similar but not identical to the
reference sequence residue, it will be
changed to lower-case. If -show is set to
'All' then non-identical, non-similar
residues will be changed to lower-case. If
this is False then no change to the case of
the residues is made on the basis of their
similarity to the reference sequence.
-[no]consensus boolean If this is true then the consensus line is
displayed.
Advanced (Unprompted) qualifiers:
-uppercase range Regions to put in uppercase.
If this is left blank, then the sequence
case is left alone.
A set of regions is specified by a set of
pairs of positions.
The positions are integers.
They are separated by any non-digit,
non-alpha character.
Examples of region specifications are:
24-45, 56-78
1:45, 67=99;765..888
1,5,8,10,23,45,57,99
-[no]number boolean If this option is true then a line giving
the positions in the alignment is displayed
every 10 characters above the alignment.
-[no]ruler boolean If this option is true then a ruler line
marking every 5th and 10th character in the
alignment is displayed.
-width integer Width of sequence to display
-margin integer This sets the length of the left-hand margin
for sequence names. If the margin is set at
0 then no margin and no names are
displayed. If the margin is set to a value
that is less than the length of a sequence
name then the sequence name is displayed
truncated to the length of the margin. If
the margin is set to -1 then the minimum
margin width that will allow all the
sequence names to be displayed in full plus
a space at the end of the name will
automatically be selected.
-html boolean Use HTML formatting
-highlight range Regions to colour if formatting for HTML.
If this is left blank, then the sequence is
left alone.
A set of regions is specified by a set of
pairs of positions.
The positions are integers.
They are followed by any valid HTML font
colour.
Examples of region specifications are:
24-45 blue 56-78 orange
1-100 green 120-156 red
A file of ranges to colour (one range per
line) can be specified as '@filename'.
-plurality float Set a cut-off for the % of positive scoring
matches below which there is no consensus.
The default plurality is taken as 50% of the
total weight of all the sequences in the
alignment.
-setcase float Sets the threshold for the scores of the
positive matches above which the consensus
is in upper-case and below which the
consensus is in lower-case. By default this
is set to be half of the (weight-adjusted)
number of sequences in the alignment.
-identity float Provides the facility of setting the
required number of identities at a position
for it to give a consensus. Therefore, if
this is set to 100% only columns of
identities contribute to the consensus.
Associated qualifiers:
"-sequence" associated qualifiers
-sbegin1 integer Start of each sequence to be used
-send1 integer End of each sequence to be used
-sreverse1 boolean Reverse (if DNA)
-sask1 boolean Ask for begin/end/reverse
-snucleotide1 boolean Sequence is nucleotide
-sprotein1 boolean Sequence is protein
-slower1 boolean Make lower case
-supper1 boolean Make upper case
-sformat1 string Input sequence format
-sdbname1 string Database name
-sid1 string Entryname
-ufo1 string UFO features
-fformat1 string Features format
-fopenfile1 string Features file name
"-outfile" associated qualifiers
-odirectory2 string Output directory
General qualifiers:
-auto boolean Turn off prompts
-stdout boolean Write standard output
-filter boolean Read standard input, write standard output
-options boolean Prompt for standard and additional values
-debug boolean Write debug output to program.dbg
-verbose boolean Report some/full command line options
-help boolean Report command line options. More
information on associated and general
qualifiers can be found with -help -verbose
-warning boolean Report warnings
-error boolean Report errors
-fatal boolean Report fatal errors
-die boolean Report deaths
Standard qualifiers:
!!AA_MULTIPLE_ALIGNMENT 1.0
../data/globins.msf MSF: 164 Type: P 25/06/01 CompCheck: 4278 ..
Name: HBB_HUMAN Len: 164 Check: 6914 Weight: 0.14
Name: HBB_HORSE Len: 164 Check: 6007 Weight: 0.15
Name: HBA_HUMAN Len: 164 Check: 3921 Weight: 0.15
Name: HBA_HORSE Len: 164 Check: 4770 Weight: 0.19
Name: MYG_PHYCA Len: 164 Check: 7930 Weight: 0.23
Name: GLB5_PETMA Len: 164 Check: 1857 Weight: 0.21
Name: LGB2_LUPLU Len: 164 Check: 2879 Weight: 0.10
//
1 50
HBB_HUMAN ~~~~~~~~VHLTPEEKSAVTALWGKVN.VDEVGGEALGR.LLVVYPWTQR
HBB_HORSE ~~~~~~~~VQLSGEEKAAVLALWDKVN.EEEVGGEALGR.LLVVYPWTQR
HBA_HUMAN ~~~~~~~~~~~~~~VLSPADKTNVKAA.WGKVGAHAGEYGAEALERMFLS
HBA_HORSE ~~~~~~~~~~~~~~VLSAADKTNVKAA.WSKVGGHAGEYGAEALERMFLG
MYG_PHYCA ~~~~~~~VLSEGEWQLVLHVWAKVEAD.VAGHGQDILIR.LFKSHPETLE
GLB5_PETMA PIVDTGSVAPLSAAEKTKIRSAWAPVYSTYETSGVDILVKFFTSTPAAQE
LGB2_LUPLU ~~~~~~~~GALTESQAALVKSSWEEFNANIPKHTHRFFILVLEIAPAAKD
51 100
HBB_HUMAN FFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSE
HBB_HORSE FFDSFGDLSNPGAVMGNPKVKAHGKKVLHSFGEGVHHLDNLKGTFAALSE
HBA_HUMAN FPTTKTYFPHFDLSHGSAQVKGHGKKVADALTNAVAHVDDMPNALSALSD
HBA_HORSE FPTTKTYFPHFDLSHGSAQVKAHGKKVGDALTLAVGHLDDLPGALSNLSD
MYG_PHYCA KFDRFKHLKTEAEMKASEDLKKHGVTVLTALGAILKKKGHHEAELKPLAQ
GLB5_PETMA FFPKFKGLTTADQLKKSADVRWHAERIINAVNDAVASMDDTEKMSMKLRD
LGB2_LUPLU LFSFLKGTSEVPQNNPELQAHAGKVFKLVYEAAIQLQVTGVVVTDATLKN
101 150
HBB_HUMAN LHCDKLH..VDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVA
HBB_HORSE LHCDKLH..VDPENFRLLGNVLVVVLARHFGKDFTPELQASYQKVVAGVA
HBA_HUMAN LHAHKLR..VDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVS
HBA_HORSE LHAHKLR..VDPVNFKLLSHCLLSTLAVHLPNDFTPAVHASLDKFLSSVS
MYG_PHYCA SHATKHK..IPIKYLEFISEAIIHVLHSRHPGDFGADAQGAMNKALELFR
GLB5_PETMA LSGKHAK..SFQVDPQYFKVLAAVIADTVAAGDAGFEKLMSMICILLRSA
LGB2_LUPLU LGSVHVSKGVADAHFPVVKEAILKTIKEVVGAKWSEELNSAWTIAYDELA
151 164
HBB_HUMAN NALAHKYH~~~~~~
HBB_HORSE NALAHKYH~~~~~~
HBA_HUMAN TVLTSKYR~~~~~~
HBA_HORSE TVLTSKYR~~~~~~
MYG_PHYCA KDIAAKYKELGYQG
GLB5_PETMA Y~~~~~~~~~~~~~
LGB2_LUPLU IVIKKEMNDAA~~~
You can specify a file of ranges to display in uppercase by giving the '-uppercase' qualifier the value '@' followed by the name of the file containing the ranges. (e.g.: '-upper @myfile').
The format of the range file is:
An example range file is:
# this is my set of ranges 12 23 4 5 this is like 12-23, but smaller 67 10348 interesting region
You can specify a file of ranges to highlight in a different colour when outputting in HTML format (using the '-html' qualifier) by giving the '-highlight' qualifier the value '@' followed by the name of the file containing the ranges. (e.g.: '-highlight @myfile').
The format of this file is very similar to the format of the above uppercase range file, except that the text after the start and end positions is used as the HTML colour name. This colour name is used 'as is' when specifying the colour in HTML in a '<font color=xxx>{sequence}</font>' construct, where 'xxx' is the name of the colour.
The standard names of HTML font colours are given in:
An example highlight range file is:
# this is my set of ranges 12 23 red 4 5 darkturquoise 67 10348 #FFE4E1
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
HBB_HUMAN --------VHLTPE.K.AVTALWG.VN-VD.V.GEA.GR-LLVvY.WTQR..ES.GD.ST
HBB_HORSE --------VQLSGE.KaAVLALWD.VN-EE.V.GEA.GR-LLVvY.WTQR..DS.GD.SN
HBA_HUMAN --------------VL.PADKTNV.AA-WGkV.AHAGEYGAEAlERMFLS.PTTKTYFPH
HBA_HORSE --------------VL.AADKTNV.AA-WSkV.GHAGEYGAEAlERMFLG.PTTKTYFPH
MYG_PHYCA -------VLSEGEWqLVLHVWAKVeAD-VAGH.QDI.IR-LFKSH.ETLEK.DR.KH.KT
GLB5_PETMA PIVDTGSVAPLSAA.KtKIRSAWAPVYSTY.TSGVDiLVKFFTST.AAQE..PK.KG.TT
LGB2_LUPLU --------GALTESqAaLVKSSWEeFNANIPKHTHRFFILVLE.A.AAKDL.SFLKGTSE
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN PDAVMGnPK..A......G.FSDGlAH..n.KGTF.T..e..CD..H--.DPE..r..GN
HBB_HORSE PGAVMGnPK..A......HsFGEG.HH..n.KGTF.A..e..CD..H--.DPE..r..GN
HBA_HUMAN FDLSHG.AQ..G.....AD..TNA.AHv..mPNALsA.....AH...--.DPV.....SH
HBA_HORSE FDLSHG.AQ..A.....GD..TLA.GH....PGALsN.....AH...--.DPV.....SH
MYG_PHYCA EAEMKA.EDl.K..VT..T..GAIlKKKGHHEAELKP.aQS.AT.Hk--iPIKYLeFiSE
GLB5_PETMA ADQLKK.AD.rW.AeriiN.vNDA.ASm..TEKMSMK.R..SGKHAk--SFQVdPqYFKV
LGB2_LUPLU VPQNNPELQAHAGKVFK.VYEAAIQLQvTGvVVTD.T.Kn.GSVHvSKG.ADAh.PvvKE
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN V.vC..AHHFGKe..PP.Q.aYQ.VvAG..NA.AH..H------
HBB_HORSE V.vV..ARHFGK...PElQ..YQ.VvAG..NA.AH..H------
HBA_HUMAN C..VT.AAHLPAe..PA.H..LD.F.AS.sTV.TS..R------
HBA_HORSE C..ST.AVHLPN...PA.H..LD.F.SS.sTV.TS..R------
MYG_PHYCA AiiH..HSRHPG..GADAQGaMN.A.ELFRKDiAA..KELGYQG
GLB5_PETMA LAAViADTVAAG.AGFEKLM.MICI.LRS.Y-------------
LGB2_LUPLU Ai.KTiKEVVGAKwsEElNsaWTIAYDEl.IViKKeMNDAA---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
HBB_HUMAN --------VHLTPE.K.AVTALWG.VN-VD.V.GEA.GR-LLVvY.WTQR..ES.GD.ST
HBB_HORSE --------VQLSGE.KaAVLALWD.VN-EE.V.GEA.GR-LLVvY.WTQR..DS.GD.SN
HBA_HORSE --------------VL.AADKTNV.AA-WSkV.GHAGEYGAEAlERMFLG.PTTKTYFPH
HBA_HUMAN --------------VL.PADKTNV.AA-WGkV.AHAGEYGAEAlERMFLS.PTTKTYFPH
MYG_PHYCA -------VLSEGEWqLVLHVWAKVeAD-VAGH.QDI.IR-LFKSH.ETLEK.DR.KH.KT
GLB5_PETMA PIVDTGSVAPLSAA.KtKIRSAWAPVYSTY.TSGVDiLVKFFTST.AAQE..PK.KG.TT
LGB2_LUPLU --------GALTESqAaLVKSSWEeFNANIPKHTHRFFILVLE.A.AAKDL.SFLKGTSE
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN PDAVMGnPK..A......G.FSDGlAH..n.KGTF.T..e..CD..H--.DPE..r..GN
HBB_HORSE PGAVMGnPK..A......HsFGEG.HH..n.KGTF.A..e..CD..H--.DPE..r..GN
HBA_HORSE FDLSHG.AQ..A.....GD..TLA.GH....PGALsN.....AH...--.DPV.....SH
HBA_HUMAN FDLSHG.AQ..G.....AD..TNA.AHv..mPNALsA.....AH...--.DPV.....SH
MYG_PHYCA EAEMKA.EDl.K..VT..T..GAIlKKKGHHEAELKP.aQS.AT.Hk--iPIKYLeFiSE
GLB5_PETMA ADQLKK.AD.rW.AeriiN.vNDA.ASm..TEKMSMK.R..SGKHAk--SFQVdPqYFKV
LGB2_LUPLU VPQNNPELQAHAGKVFK.VYEAAIQLQvTGvVVTD.T.Kn.GSVHvSKG.ADAh.PvvKE
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN V.vC..AHHFGKe..PP.Q.aYQ.VvAG..NA.AH..H------
HBB_HORSE V.vV..ARHFGK...PElQ..YQ.VvAG..NA.AH..H------
HBA_HORSE C..ST.AVHLPN...PA.H..LD.F.SS.sTV.TS..R------
HBA_HUMAN C..VT.AAHLPAe..PA.H..LD.F.AS.sTV.TS..R------
MYG_PHYCA AiiH..HSRHPG..GADAQGaMN.A.ELFRKDiAA..KELGYQG
GLB5_PETMA LAAViADTVAAG.AGFEKLM.MICI.LRS.Y-------------
LGB2_LUPLU Ai.KTiKEVVGAKwsEElNsaWTIAYDEl.IViKKeMNDAA---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
<pre>
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxx<font color=green>xxxxxxxxxx</font>xExSxxxxxxxKxxxxxExGxxxLxxxxx<font color=red>x</font>IxPxxxx<font color=blue>FFxxFx</font>xLxx
HBB_HUMAN ---<font color=green>-----VHLTP</font>E.K.AVTALWG.VN-VD.V.GEA.GR-LL<font color=red>V</font>vY.WTQR<font color=blue>..ES.G</font>D.ST
HBB_HORSE ---<font color=green>-----VQLSG</font>E.KaAVLALWD.VN-EE.V.GEA.GR-LL<font color=red>V</font>vY.WTQR<font color=blue>..DS.G</font>D.SN
HBA_HUMAN ---<font color=green>----------</font>-VL.PADKTNV.AA-WGkV.AHAGEYGAE<font color=red>A</font>lERMFLS<font color=blue>.PTTKT</font>YFPH
HBA_HORSE ---<font color=green>----------</font>-VL.AADKTNV.AA-WSkV.GHAGEYGAE<font color=red>A</font>lERMFLG<font color=blue>.PTTKT</font>YFPH
MYG_PHYCA ---<font color=green>----VLSEGE</font>WqLVLHVWAKVeAD-VAGH.QDI.IR-LF<font color=red>K</font>SH.ETLE<font color=blue>K.DR.K</font>H.KT
GLB5_PETMA PIV<font color=green>DTGSVAPLSA</font>A.KtKIRSAWAPVYSTY.TSGVDiLVKFF<font color=red>T</font>ST.AAQE<font color=blue>..PK.K</font>G.TT
LGB2_LUPLU ---<font color=green>-----GALTE</font>SqAaLVKSSWEeFNANIPKHTHRFFILVL<font color=red>E</font>.A.AAKD<font color=blue>L.SFLK</font>GTSE
Consensus xxx<font color=green>xxxxxxxxxx</font>xExSxxxxxxxKxxxxxExGxxxLxxxxx<font color=red>x</font>IxPxxxx<font color=blue>FFxxFx</font>xLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN PDAVMGnPK..A......G.FSDGlAH..n.KGTF.T..e..CD..H--.DPE..r..GN
HBB_HORSE PGAVMGnPK..A......HsFGEG.HH..n.KGTF.A..e..CD..H--.DPE..r..GN
HBA_HUMAN FDLSHG.AQ..G.....AD..TNA.AHv..mPNALsA.....AH...--.DPV.....SH
HBA_HORSE FDLSHG.AQ..A.....GD..TLA.GH....PGALsN.....AH...--.DPV.....SH
MYG_PHYCA EAEMKA.EDl.K..VT..T..GAIlKKKGHHEAELKP.aQS.AT.Hk--iPIKYLeFiSE
GLB5_PETMA ADQLKK.AD.rW.AeriiN.vNDA.ASm..TEKMSMK.R..SGKHAk--SFQVdPqYFKV
LGB2_LUPLU VPQNNPELQAHAGKVFK.VYEAAIQLQvTGvVVTD.T.Kn.GSVHvSKG.ADAh.PvvKE
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN V.vC..AHHFGKe..PP.Q.aYQ.VvAG..NA.AH..H------
HBB_HORSE V.vV..ARHFGK...PElQ..YQ.VvAG..NA.AH..H------
HBA_HUMAN C..VT.AAHLPAe..PA.H..LD.F.AS.sTV.TS..R------
HBA_HORSE C..ST.AVHLPN...PA.H..LD.F.SS.sTV.TS..R------
MYG_PHYCA AiiH..HSRHPG..GADAQGaMN.A.ELFRKDiAA..KELGYQG
GLB5_PETMA LAAViADTVAAG.AGFEKLM.MICI.LRS.Y-------------
LGB2_LUPLU Ai.KTiKEVVGAKwsEElNsaWTIAYDEl.IViKKeMNDAA---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
</pre>
HBB_HUMAN HLTPEEKSAVTALWGKVN-VD HBB_HORSE Q.sG...a..L...D...-Ee HBA_HUMAN -----VL.PADKTNV.AA-WG HBA_HORSE -----VL..ADKTNV.AA-WS MYG_PHYCA SEGEWqLVLHVWAKVeAd-.A GLB5_PETMA P.sAA..tKiRsA.AP.YSTY LGB2_LUPLU A..ESqAaL.KsS.EeF.ANI
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
HBB_HUMAN --------vhltpeEkSavtalwgKvn-vdEvGgeaLgr-llvVyPwtqrFFesFgdLst
HBB_HORSE --------vqlsgeEkAavlalwdKvn-eeEvGgeaLgr-llvVyPwtqrFFdsFgdLsn
HBA_HUMAN --------------vlSpadktnvKaa-wgKvGahageygaeaLermflsFpttktyfph
HBA_HORSE --------------vlSaadktnvKaa-wsKvGghageygaeaLermflgFpttktyfph
MYG_PHYCA -------vlsegewQlvlhvwakvEad-vaghGqdiLir-lfkshPetlekFdrFkhLkt
GLB5_PETMA pivdtgsvaplsaaEkTkirsawapvystyEtsgvdIlvkfftstPaaqeFFpkFkgLtt
LGB2_LUPLU --------galtesQaAlvkssweEfnanipkhthrffilvleIaPaakdlFsflkgtse
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN pdavmgNpkVKaHGKKVLgAfsdgLahLDNLkgtfAtLSELHcdKLh--VdpeNFRLLgn
HBB_HORSE pgavmgNpkVKaHGKKVLhSfgegVhhLDNLkgtfAaLSELHcdKLh--VdpeNFRLLgn
HBA_HUMAN fdlshgSaqVKgHGKKVadALtnaVahVDDMpnalSaLSDLHahKLR--VdpvNFKLLsh
HBA_HORSE fdlshgSaqVKaHGKKVgdALtlaVghLDDLpgalSnLSDLHahKLR--VdpvNFKLLsh
MYG_PHYCA eaemkaSedLKkHGvtVLtALgaiLkkkghheaelkpLAqsHatKhK--IpikylEfIse
GLB5_PETMA adqlkkSadVRwHaERIInAVndaVasMDDtekmsmkLrDLsgkhaK--sfqvDpQyfkv
LGB2_LUPLU vpqnnpelqahagkvfkLvyeaaiqlqVtgVvvtdAtLkNLgsvhVskgVadaHFpVVke
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN vLVcVLahhfgkEFTppVqAAyqKvVagVAnaLahKYh------
HBB_HORSE vLVvVLarhfgkDFTpeLqASyqKvVagVAnaLahKYh------
HBA_HUMAN cLLvtLaahlpaEFTpaVhASldKfLasVStvLtsKYr------
HBA_HORSE cLLstLavhlpnDFTpaVhASldKfLssVStvLtsKYr------
MYG_PHYCA aIIhVLhsrhpgDFgadaqgAmnKaLelfrkdIaaKYkelgyqg
GLB5_PETMA laavIadtvaagDagfeklmSmiciLlrsAy-------------
LGB2_LUPLU aILktIkevvgakWSeeLnSAwtiaydeLAivIkkEmndaa---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
HBB_HUMAN --------......E.S.......K..-..E.G...L..-.....P....FF..F..L..
HBB_HORSE --------......E.........K..-..E.G...L..-.....P....FF..F..L..
HBA_HUMAN --------------..S.......K..-....G.................F.........
HBA_HORSE --------------..S.......K..-....G.................F.........
MYG_PHYCA -------....................-....G...L..-.....P.....F..F..L..
GLB5_PETMA ..............E...............E..............P....FF..F..L..
LGB2_LUPLU --------...................................I.P.....F........
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN .........VK.HGKKVL.A.......LD.L....A.LS.LH..KL.--V...NF.LL..
HBB_HORSE .........VK.HGKKVL......V..LD.L....A.LS.LH..KL.--V...NF.LL..
HBA_HUMAN ......S..VK.HGKKV..AL...V...DD.......LSDLH..KLR--V...NFKLL..
HBA_HORSE ......S..VK.HGKKV..AL...V..LDDL......LSDLH..KLR--V...NFKLL..
MYG_PHYCA ......S...K.HG..VL.AL................L...H..K..--...........
GLB5_PETMA ......S..V..H......A....V...DD.......L.DL......--...........
LGB2_LUPLU .................L.................A.L..L........V....F.....
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN .L..VL.......FT..V.A...K....VA..L..KY.------
HBB_HORSE .L..VL......DFT....AS..K....VA..L..KY.------
HBA_HUMAN .LL..L.......FT..V.AS..K.L..V...L..KY.------
HBA_HORSE .LL..L......DFT..V.AS..K.L..V...L..KY.------
MYG_PHYCA ....VL......DF.........K.L.........KY.......
GLB5_PETMA ............D.......S....L...A.-------------
LGB2_LUPLU ..L..........................A...........---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
HBB_HUMAN --------......E.S.......K..-..E.G...L..-...v.P....FF..F..L..
HBB_HORSE --------......E.a.......K..-..E.G...L..-...v.P....FF..F..L..
HBA_HUMAN --------------..S.......K..-..k.G..........l......F.........
HBA_HORSE --------------..S.......K..-..k.G..........l......F.........
MYG_PHYCA -------.......q.........e..-....G...L..-.....P.....F..F..L..
GLB5_PETMA ..............E.t.............E.....i........P....FF..F..L..
LGB2_LUPLU --------......q.a.......e..................I.P.....F........
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN ......n..VK.HGKKVL.A....l..LDnL....A.LSeLH..KL.--V...NFrLL..
HBB_HORSE ......n..VK.HGKKVL.s....V..LDnL....A.LSeLH..KL.--V...NFrLL..
HBA_HUMAN ......S..VK.HGKKV..AL...V..vDDm....s.LSDLH..KLR--V...NFKLL..
HBA_HORSE ......S..VK.HGKKV..AL...V..LDDL....s.LSDLH..KLR--V...NFKLL..
MYG_PHYCA ......S..lK.HG..VL.AL...l............La..H..K.k--i.....e.i..
GLB5_PETMA ......S..Vr.H.erii.Av...V..mDD.......L.DL.....k--....d.q....
LGB2_LUPLU .................L.........v..v....A.L.nL....v...V...hF.vv..
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN .Lv.VL......eFT..V.Aa..K.v..VA..L..KY.------
HBB_HORSE .Lv.VL......DFT..l.AS..K.v..VA..L..KY.------
HBA_HUMAN .LL..L......eFT..V.AS..K.L..Vs..L..KY.------
HBA_HORSE .LL..L......DFT..V.AS..K.L..Vs..L..KY.------
MYG_PHYCA .ii.VL......DF......a..K.L......i..KY.......
GLB5_PETMA ....i.......D.......S....L...A.-------------
LGB2_LUPLU .iL..i.......ws..l.sa.......lA..i..e.....---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
HBB_HUMAN --------VHLTPE.K.AVTALWG.VN-VD.V.GEA.GR-LLV.Y.WTQR..ES.GD.ST
HBB_HORSE --------VQLSGE.K.AVLALWD.VN-EE.V.GEA.GR-LLV.Y.WTQR..DS.GD.SN
HBA_HUMAN --------------VL.PADKTNV.AA-WG.V.AHAGEYGAEA.ERMFLS.PTTKTYFPH
HBA_HORSE --------------VL.AADKTNV.AA-WS.V.GHAGEYGAEA.ERMFLG.PTTKTYFPH
MYG_PHYCA -------VLSEGEW.LVLHVWAKV.AD-VAGH.QDI.IR-LFKSH.ETLEK.DR.KH.KT
GLB5_PETMA PIVDTGSVAPLSAA.K.KIRSAWAPVYSTY.TSGVD.LVKFFTST.AAQE..PK.KG.TT
LGB2_LUPLU --------GALTES.A.LVKSSWE.FNANIPKHTHRFFILVLE.A.AAKDL.SFLKGTSE
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
HBB_HUMAN PDAVMG.PK..A......G.FSDG.AH....KGTF.T.....CD..H--.DPE.....GN
HBB_HORSE PGAVMG.PK..A......H.FGEG.HH....KGTF.A.....CD..H--.DPE.....GN
HBA_HUMAN FDLSHG.AQ..G.....AD..TNA.AH....PNAL.A.....AH...--.DPV.....SH
HBA_HORSE FDLSHG.AQ..A.....GD..TLA.GH....PGAL.N.....AH...--.DPV.....SH
MYG_PHYCA EAEMKA.ED..K..VT..T..GAI.KKKGHHEAELKP..QS.AT.H.--.PIKYL.F.SE
GLB5_PETMA ADQLKK.AD..W.A....N..NDA.AS...TEKMSMK.R..SGKHA.--SFQV.P.YFKV
LGB2_LUPLU VPQNNPELQAHAGKVFK.VYEAAIQLQ.TG.VVTD.T.K..GSVH.SKG.ADA..P..KE
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
HBB_HUMAN V..C..AHHFGK...PP.Q..YQ.V.AG..NA.AH..H------
HBB_HORSE V..V..ARHFGK...PE.Q..YQ.V.AG..NA.AH..H------
HBA_HUMAN C..VT.AAHLPA...PA.H..LD.F.AS..TV.TS..R------
HBA_HORSE C..ST.AVHLPN...PA.H..LD.F.SS..TV.TS..R------
MYG_PHYCA A..H..HSRHPG..GADAQG.MN.A.ELFRKD.AA..KELGYQG
GLB5_PETMA LAAV.ADTVAAG.AGFEKLM.MICI.LRS.Y-------------
LGB2_LUPLU A..KT.KEVVGAK..EE.N..WTIAYDE..IV.KK.MNDAA---
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
HBB_HUMAN --------VHLTPEEKSAVTALWGKVN-VDEVGGEALGR-LLVVYPWTQRFFESFGDLST
HBB_HORSE --------.Q.sG...a..L...D...-Ee.........-............d......N
HBA_HUMAN --------------VL.PADKTNV.AA-WGk..AH.GEYGAEAlERMFLS.PTtKTYFPH
HBA_HORSE --------------VL..ADKTNV.AA-WSk...H.GEYGAEAlERMFLG.PTtKTYFPH
MYG_PHYCA -------VlSEGEWqLVLHVWAKVeAd-.AGH.QdI.I.-.FKSh.E.LEK.dR.KH.K.
GLB5_PETMA PIVDTGSVAP.sAA..tKiRsA.AP.YSTY.TS.VDiLVKFFTST.AA.E..PK.KG.t.
LGB2_LUPLU --------GA..ESqAaL.KsS.EeF.ANIPKHTHRFFILv.EiA.AAkDL.SFLKGT.E
HBB_HUMAN --------VHLTPEEKSAVTALWGKVN-VDEVGGEALGR-LLVVYPWTQRFFESFGDLST
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
HBB_HUMAN PDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLH--VDPENFRLLGN
HBB_HORSE .G................Hs.Ge.vH..........A..........--...........
HBA_HUMAN F.LSH.sAq..G.....AD.LtnAv..v.dmPNALsA..d..AH..R--...V..k..Sh
HBA_HORSE F.LSH.sAq........GD.LtLAvG...d.P.ALsN..d..AH..R--...V..k..Sh
MYG_PHYCA EAEmKAsEDl.K..VT..T.LGAI.KKKGhHeAELKP.aqS.AT.HK--iPIkYLEFiSE
GLB5_PETMA A.QlKKsAD.rW.AeriiN.Vn.Av.Sm.dTeKMSMK.Rd.SGKHAK--SFQVdPqYFKV
LGB2_LUPLU VPQNNPELqAH.GKVFK.VYEaAIQLQvTGvVV.D...KN.GSVHvSKG.ADAh.PvvKE
HBB_HUMAN PDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLH--VDPENFRLLGN
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
HBB_HUMAN VLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH------
HBB_HORSE ...V...R....d...El..s.................------
HBA_HUMAN C.lVT..A.LPA....A.H.sLD.Fl.S.sTV.TS..R------
HBA_HORSE C.lST..V.LPNd...A.H.sLD.FlsS.sTV.TS..R------
MYG_PHYCA AiiH..HSRHPGd.GADA.G.MN.AlELFRKDi.A..KELGYQG
GLB5_PETMA lAAViADTVAAGdAGFEKLMsMICilLRS.Y-------------
LGB2_LUPLU AilKTiKEVV.AkwsEElNs.wTIAYDEl.IViKKeMnDAA---
HBB_HUMAN VLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH------
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
HBB_HUMAN --------VHLTPEEksavtalwgkvn-vdevggealgr-llvvypwtqrffesfgdlst
HBB_HORSE --------.Q.SG...a..l...d...-ee.........-............d......n
HBA_HUMAN --------------Vl.padktnv.aa-wgk..ah.geygaealermfls.pttktyfph
HBA_HORSE --------------Vl..adktnv.aa-wsk...h.geygaealermflg.pttktyfph
MYG_PHYCA -------vLSEGEWQlvlhvwakvead-.agh.qdi.i.-.fksh.e.lek.dr.kh.k.
GLB5_PETMA pivdtgsvAP.SAA..tkirsa.ap.ysty.ts.vdilvkfftst.aa.e..pk.kg.t.
LGB2_LUPLU --------GA..ESQaal.kss.eef.anipkhthrffilv.eia.aakdl.sflkgt.e
HBB_HUMAN --------VHLTPEEksavtalwgkvn-vdevggealgr-llvvypwtqrffesfgdlst
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
HBB_HUMAN pdavmgnpkvkahgkkvlgafsdglahldnlkgtfatlselhcdklh--vdpenfrllgn
HBB_HORSE .g................hs.ge.vh..........a..........--...........
HBA_HUMAN f.lsh.saq..g.....ad.ltnav..v.dmpnalsa..d..ah..r--...v..k..sh
HBA_HORSE f.lsh.saq........gd.ltlavg...d.p.alsn..d..ah..r--...v..k..sh
MYG_PHYCA eaemkasedl.k..vt..t.lgai.kkkghheaelkp.aqs.at.hk--ipikylefise
GLB5_PETMA a.qlkksad.rw.aeriin.vn.av.sm.dtekmsmk.rd.sgkhak--sfqvdpqyfkv
LGB2_LUPLU vpqnnpelqah.gkvfk.vyeaaiqlqvtgvvv.d...kn.gsvhvskg.adah.pvvke
HBB_HUMAN pdavmgnpkvkahgkkvlgafsdglahldnlkgtfatlselhcdklh--vdpenfrllgn
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
HBB_HUMAN vlvcvlahhfgkeftppvqaayqkvvagvanalahkyh------
HBB_HORSE ...v...r....d...el..s.................------
HBA_HUMAN c.lvt..a.lpa....a.h.sld.fl.s.stv.ts..r------
HBA_HORSE c.lst..v.lpnd...a.h.sld.flss.stv.ts..r------
MYG_PHYCA aiih..hsrhpgd.gada.g.mn.alelfrkdi.a..kelgyqg
GLB5_PETMA laaviadtvaagdagfeklmsmicillrs.y-------------
LGB2_LUPLU ailktikevv.akwseelns.wtiaydel.ivikkemndaa---
HBB_HUMAN vlvcvlahhfgkeftppvqaayqkvvagvanalahkyh------
10 20 30 40 50 60
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
GLB5_PETMA PIVDTGSVAPLSAA.KtKIRSAWAPVYSTY.TSGVDiLVKFFTST.AAQE..PK.KG.TT
HBA_HORSE --------------VL.AADKTNV.AA-WSkV.GHAGEYGAEAlERMFLG.PTTKTYFPH
HBA_HUMAN --------------VL.PADKTNV.AA-WGkV.AHAGEYGAEAlERMFLS.PTTKTYFPH
HBB_HORSE --------VQLSGE.KaAVLALWD.VN-EE.V.GEA.GR-LLVvY.WTQR..DS.GD.SN
HBB_HUMAN --------VHLTPE.K.AVTALWG.VN-VD.V.GEA.GR-LLVvY.WTQR..ES.GD.ST
LGB2_LUPLU --------GALTESqAaLVKSSWEeFNANIPKHTHRFFILVLE.A.AAKDL.SFLKGTSE
MYG_PHYCA -------VLSEGEWqLVLHVWAKVeAD-VAGH.QDI.IR-LFKSH.ETLEK.DR.KH.KT
Consensus xxxxxxxxxxxxxxExSxxxxxxxKxxxxxExGxxxLxxxxxxIxPxxxxFFxxFxxLxx
70 80 90 100 110 120
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
GLB5_PETMA ADQLKK.AD.rW.AeriiN.vNDA.ASm..TEKMSMK.R..SGKHAk--SFQVdPqYFKV
HBA_HORSE FDLSHG.AQ..A.....GD..TLA.GH....PGALsN.....AH...--.DPV.....SH
HBA_HUMAN FDLSHG.AQ..G.....AD..TNA.AHv..mPNALsA.....AH...--.DPV.....SH
HBB_HORSE PGAVMGnPK..A......HsFGEG.HH..n.KGTF.A..e..CD..H--.DPE..r..GN
HBB_HUMAN PDAVMGnPK..A......G.FSDGlAH..n.KGTF.T..e..CD..H--.DPE..r..GN
LGB2_LUPLU VPQNNPELQAHAGKVFK.VYEAAIQLQvTGvVVTD.T.Kn.GSVHvSKG.ADAh.PvvKE
MYG_PHYCA EAEMKA.EDl.K..VT..T..GAIlKKKGHHEAELKP.aQS.AT.Hk--iPIKYLeFiSE
Consensus xxxxxxSxxVKxHGKKVLxALxxxVxxLDDLxxxxAxLSDLHxxKLRxxVxxxNFKLLxx
130 140 150 160 170 180
----:----|----:----|----:----|----:----|----:----|----:----|
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
GLB5_PETMA LAAViADTVAAG.AGFEKLM.MICI.LRS.Y-------------
HBA_HORSE C..ST.AVHLPN...PA.H..LD.F.SS.sTV.TS..R------
HBA_HUMAN C..VT.AAHLPAe..PA.H..LD.F.AS.sTV.TS..R------
HBB_HORSE V.vV..ARHFGK...PElQ..YQ.VvAG..NA.AH..H------
HBB_HUMAN V.vC..AHHFGKe..PP.Q.aYQ.VvAG..NA.AH..H------
LGB2_LUPLU Ai.KTiKEVVGAKwsEElNsaWTIAYDEl.IViKKeMNDAA---
MYG_PHYCA AiiH..HSRHPG..GADAQGaMN.A.ELFRKDiAA..KELGYQG
Consensus xLLxVLxxxxxxDFTxxVxASxxKxLxxVAxxLxxKYxxxxxxx
To see the available EMBOSS data files, run:
% embossdata -showall
To fetch one of the data files (for example 'Exxx.dat') into your current directory for you to inspect or modify, run:
% embossdata -fetch -file Exxx.dat
Users can provide their own data files in their own directories. Project specific files can be put in the current directory, or for tidier directory listings in a subdirectory called ".embossdata". Files for all EMBOSS runs can be put in the user's home directory, or again in a subdirectory called ".embossdata".
The directories are searched in the following order: