KEY:
    ENSP* - Homo sapiens (Human)
    ENSBTA* - Bos taurus (Cow)
    ENSTTR* - Tursiops truncatus (Dolphin)
    bmy_* - Balaena mysticetus (Bowhead whale)
    BACU* - Balaenoptera acutorostrata (Minke whale)

Copy from below the line for a valid .msf file.

----------------------------------------------------------------------------------
                
NoName   MSF: 4  Type: P  Thu May 15 18:24:40 2014  Check: 00 ..

 Name: ENSBTAP00000054666/1-242  Len:    288  Check:  9946  Weight:  1.00
 Name: ENSP00000389111/1-226     Len:    288  Check:  2315  Weight:  1.00
 Name: bmy_10040T0/1-163         Len:    288  Check:  7004  Weight:  1.00
 Name: BACU001169/1-245          Len:    288  Check:  2150  Weight:  1.00

//


                          1                                                   50
ENSBTAP00000054666/1-242  -AAPPPPPRR SERARGAGAT AAPTPPGWEP AADAPW-CPY KVLPEGPEAG 
ENSP00000389111/1-226     MRAPPLLLLL AACAPPPCAA AAPTPPGWEP TPDAPW-CPY KVLPEGPEAG 
bmy_10040T0/1-163         ---------- MGRRGAARAR SRPLLPTIRR ---------- ---------- 
BACU001169/1-245          ---------M LCSDRAAGGP EKPATPSSEL RRQDPWRGPW RPGPSSPDSA 


                          51                                                 100
ENSBTAP00000054666/1-242  GGRLCFRSPA RGFRCQAPGC AAHASAGRSL RASVLRNRSV LLQWRLG--- 
ENSP00000389111/1-226     GGRLCFRSPA RGFRCQAPGC VLHAPAGRSL RASVLRNRSV LLQWRLA--- 
bmy_10040T0/1-163         ---------- HGILA----- ---------- --------SV LLQWRLA--- 
BACU001169/1-245          G--------- HGVWVVPP-- QVHLPGTGHW SPEATQRSGP SSQWLEATSG 


                          101                                                150
ENSBTAP00000054666/1-242  -------PAE A--------- ---------- RRVRAFALNC S--------- 
ENSP00000389111/1-226     -------PAA A--------- ---------- RRVRAFALNC S--------- 
bmy_10040T0/1-163         -------PAE A--------- ---------- HRVRAFALNC S--------- 
BACU001169/1-245          PTGEKRSPTE TNPSLSTCFS EPSSAKRGAL RPEKAPFPGC QAAPPSPLVL 


                          151                                                200
ENSBTAP00000054666/1-242  W-RGAYTRFP CERVLLGASC RDYLLPDVHD GVRYRLPAAT AAASRAGRRP 
ENSP00000389111/1-226     W-RGAYTRFP CERVLLGASC RDYLLPDVHD SVLYRL-CLQ PLPLRAGPAA 
bmy_10040T0/1-163         W-RGAYTRFP CERVLLGASC RDYLLPDVHD GVRYRL-CLQ SLPLRAEP-A 
BACU001169/1-245          WGRGAYTRFP CERVLLGASC RDYLLPDVHD GVRYRL-CLQ SLPLRAEP-A 


                          201                                                250
ENSBTAP00000054666/1-242  GTRRTRRVCG VRRRACRHAG DRGGHD---- -GGGWFHLRY ARGHLPARGL 
ENSP00000389111/1-226     AAPETPEPAE CVEFTAEPAG MQDIVVAMTA VGGSICVMLV VICLLVAY-- 
bmy_10040T0/1-163         VAPEPTASAE CVEFAAEPAG MREIVVAMTA VGGSICVMLV VICLLVAY-- 
BACU001169/1-245          VAPEPAASAE CVEFAAEPAG MREIVVAMTA VGGSICVMLV VICLLVAY-- 


                          251                                                300
ENSBTAP00000054666/1-242  HHREPHAPGL RAPGPTQAAL KREAPARPGS TCPTRAQE 
ENSP00000389111/1-226     ---------- -----ITENL MRPALARPG- ---LRRHP 
bmy_10040T0/1-163         ---------- -----ITENL MHPAFGRPG- ---LRRQP 
BACU001169/1-245          ---------- -----ITENL MHPAFGRPG- ---LRRQP