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: 5  Type: P  Thu May 15 16:40:36 2014  Check: 00 ..

 Name: ENSP00000368190/1-1241     Len:    1403  Check:  4562  Weight:  1.00
 Name: ENSBTAP00000010289/1-1241  Len:    1403  Check:  6030  Weight:  1.00
 Name: ENSTTRP00000003667/1-1240  Len:    1403  Check:  2931  Weight:  1.00
 Name: bmy_05909T0/1-1212         Len:    1403  Check:  7721  Weight:  1.00
 Name: BACU000611/1-1290          Len:    1403  Check:  2443  Weight:  1.00

//


                           1                                                   50
ENSP00000368190/1-1241     MALGTTLRAS LLLLGLLTEG LAQLAIPASV PRGFWALPEN LTVVEGASVE 
ENSBTAP00000010289/1-1241  MALSTHFKAA LLLLGLLMTG LTQVPILASA PRGFWALPEN LTVVEGAVAE 
ENSTTRP00000003667/1-1240  LALRLPIWTP LLLLGLLMTG LAQVPVPASA PRGFWALPEN LTVVEGAAAE 
bmy_05909T0/1-1212         MALRLPIRTP LLLMGLLMTG LAQVPVPASA PRGFWALPEN LTVVEGAAAE 
BACU000611/1-1290          MALRLPIRTP LLLMGLLMTG LAQVPVPASA PRGFWALPEN LTVVEGAAAE 


                           51                                                 100
ENSP00000368190/1-1241     LRCGVSTPGS AVQWAKDGLL LGPDPRIPGF PRYRLEGDPA RGEFHLHIEA 
ENSBTAP00000010289/1-1241  LRCGVRAPGS AVQWAKDGLL LGPDPRIPSF PRYRLEGDPA KGEFHLHIEA 
ENSTTRP00000003667/1-1240  LWCGVSAPGS TVQWAKDGLL LGPDPRIPSF PRYRLQGDPT KGEFHLHIEA 
bmy_05909T0/1-1212         LWCGVSAPGS TVQWAKDGLL LGPDPRIPSF PRYRLQGDPT K--------- 
BACU000611/1-1290          LWCGVSAPGS TVQWAKDGLL LGPDPRIPSF PRYRLQGDPT KGEFHLHIEA 


                           101                                                150
ENSP00000368190/1-1241     CDLSDDAEYE CQVGRSEMGP ELVSPRVILS ILVPPKLLLL TPEAGTMVTW 
ENSBTAP00000010289/1-1241  CDLSDDAEYE CQVGRSETGP ELVSPRVILS ILVPPKVLQL TPEAGSTVTW 
ENSTTRP00000003667/1-1240  CDLSDDAGYE CQVSRSETGP ELVSPRVILS ILVPPKVLQL TPEAGSTVTW 
bmy_05909T0/1-1212         ---------- ---------- ---------- --VPPKVLQL TPEAGSTVTW 
BACU000611/1-1290          CDLSDDAGYE CQVSRSETGP ELVSPRVILS ILVPPKVLQL TPEAGSTVTW 


                           151                                                200
ENSP00000368190/1-1241     VAGQEYVVNC VSGDAKPAPD ITILLSGQTI SDISANVNEG SQQKLFTVEA 
ENSBTAP00000010289/1-1241  VAGQEYTVSC VSGDAKPAPD ITFLLSGQTI SGISANVNEG SQQKLFTTEA 
ENSTTRP00000003667/1-1240  VAGQEYLVSC VSGDAKPAPD ITFLLSGQTI SDISANVNEG SQEKLFTTEA 
bmy_05909T0/1-1212         VAGQEYLVSC VSGDAKPAPD ITFLLSGQTI SDISANVNEG SQEKLFTTEA 
BACU000611/1-1290          VAGQEYLVSC VSGDAKPAPD ITFLLSGQTI SDISANVNEG SQEKLFTTEA 


                           201                                                250
ENSP00000368190/1-1241     TARVTPRSSD NRQLLVCEAS SPALEAPIKA SFTVNVL--- ---------- 
ENSBTAP00000010289/1-1241  TARVTPQSSD NGQLLVCEGS SPALDTPIKA SFTMNVL--- ---------- 
ENSTTRP00000003667/1-1240  TARVTPQSSD NGQLLVCEGS SPALDTPIKA SITMNVL--- ---------- 
bmy_05909T0/1-1212         TARVTPQSSD NGQLLVCEGS SPALDTPIKA SITMNVL--- ---------- 
BACU000611/1-1290          TARVTPQSSD NGQLLVCEGS SPALDTPIKA SITMNVLCKW GTESTVGTKD 


                           251                                                300
ENSP00000368190/1-1241     ---------- ---------- ---------- ---------- --------FP 
ENSBTAP00000010289/1-1241  ---------- ---------- ---------- ---------- --------FP 
ENSTTRP00000003667/1-1240  ---------- ---------- ---------- ---------- --------FP 
bmy_05909T0/1-1212         ---------- ---------- ---------- ---------- --------FP 
BACU000611/1-1290          REQELGGPGG TGIMEGSDSQ GGNIGVQRQV VGPGKNGWGP QAHDCCSPVP 


                           301                                                350
ENSP00000368190/1-1241     PGPPVIEWPG LDEGHVRAGQ SLELPCVARG GNPLATLQWL KNGQPVSTAW 
ENSBTAP00000010289/1-1241  PGPPVIEWPG LDEGQVRAGQ SLELLCTARG GNPLATLQWL KNGQPVSTAW 
ENSTTRP00000003667/1-1240  PGPPV-EWSG LDEGHARAGQ NLELLCMARR GNPL-TLQWL KNGQPVSTAW 
bmy_05909T0/1-1212         PGPPVIEWPG LDEGHARAGQ NLELLCMARG GNPLATLQWL KNGQPVSTAW 
BACU000611/1-1290          PGPPVIEWPG LDEGHARAGQ NLELLCMARG GNPLATLQWL KNGQPVSTAW 


                           351                                                400
ENSP00000368190/1-1241     GTEHTQAVAR SVLVMTVRPE DHGAQLSCEA HNSVSAGTQE HGITLQVTFP 
ENSBTAP00000010289/1-1241  GTEHAQAVAR SLLVMIVRPE DHGARLSCEA YNSVSSGIQE RGVTLQVTFP 
ENSTTRP00000003667/1-1240  GTEHTQAVAR SMLVMIVRPE DHGARLSCEA YNSVSTGIQE RGVTLQVTFP 
bmy_05909T0/1-1212         GTEHAQAVAR SMLVMIVRPE DHGARLSCEA YNSVSTGIQE RGVTLQVTFP 
BACU000611/1-1290          GTEHAQAVAR STLVMIVRPE DHGARLSCEA YNSVSTGIQE RGVTLQVTFP 


                           401                                                450
ENSP00000368190/1-1241     PSAIIILGSA SQTENKNVTL SCVSKSSRPR VLLRWWLGWR QLLPMEETVM 
ENSBTAP00000010289/1-1241  PSAITILGSA SQSENKNVTL SCITKSSRPR VLLRWWLGWR QLQPSEETVM 
ENSTTRP00000003667/1-1240  PSAITILGSA SQSENKNVTL SCITKSSRPR VLLRWWLGWR QLLSTEETVM 
bmy_05909T0/1-1212         PGAITILGSA SQSENKNVTL SCITKSSRPR ---------- ---------- 
BACU000611/1-1290          PSAITILGSA SQSENKNVTL SCITKSSRPR VLLRWWLGWR QLLPTEETVM 


                           451                                                500
ENSP00000368190/1-1241     DGLHGGHISM SNLTFLARRE DNGLTLTCEA FSEAFTKETF KKSLILNVKY 
ENSBTAP00000010289/1-1241  DGLHGGHISM SNLTFLARRE DNGLTLTCEA FSEAFTKETF KKSLTLNVKY 
ENSTTRP00000003667/1-1240  DGLHGGHISM SNLTFLARRE DNGLTLTCEA FSEAFTKETF KKSLALNVKY 
bmy_05909T0/1-1212         -GLHGGHISM SNLTFLARRE DNGLTLTCEA FSEAFTKETF KKSLTLNVKC 
BACU000611/1-1290          DGLHGGHISM SNLTFLARRE DNGLTLTCEA FSEAFTKETF KKSLTLNVKY 


                           501                                                550
ENSP00000368190/1-1241     ---------- ---------- ---------- ----PAQKLW IEGPPEGQKL 
ENSBTAP00000010289/1-1241  ---------- ---------- ---------- ----PAQKLW IEGPPEGQRL 
ENSTTRP00000003667/1-1240  ---------- ---------- ---------- ----PAQKLW IEGPPEGQRL 
bmy_05909T0/1-1212         EAPPSPGGAP CLRDPHPQAP AGREKPLFLA LPTDPAQKLW IEGPPEGQRL 
BACU000611/1-1290          ---------- ---------- ---------- ----PAQKLW IEGPPEGQRL 


                           551                                                600
ENSP00000368190/1-1241     RAGTRVRLVC LAIGGNPEPS LMWYKDSRTV TESRLPQESR RVHLGSVEKS 
ENSBTAP00000010289/1-1241  RAGNRVRLVC LAIGGNPDPS LTWYKDSRTV TEPRPPQEPR RVQLGSVEKS 
ENSTTRP00000003667/1-1240  RAGTRVRLVC LAIGGNPDPS LTWYKDSRTV TEPRPPQETR RVQLGSLEKS 
bmy_05909T0/1-1212         RAGTRVRLVC LAIGGNPDPS LTWYKDSRTV TEPRPPQEPR RVQLGSLEKS 
BACU000611/1-1290          RAGTRVRLVC LAIGGNPDPS LTWYKDSRTV TEPRPPQEPR RVQLGSLEKS 


                           601                                                650
ENSP00000368190/1-1241     GSTFSRELVL VTGPSDNQAK FTCKAGQLSA STQLAVQFPP TNVTILANAS 
ENSBTAP00000010289/1-1241  GSIFSRELVL ITGPSDNQAK FTCKAGQLSA STQLVVQFPP TNVTILANAS 
ENSTTRP00000003667/1-1240  GSTFSRELVL ITGPSDNQAK FTCKAGQLSA STQLVVQFPP TNVTILANAS 
bmy_05909T0/1-1212         GSTFSRELVL ITGPSDNQAK FTCKAGQLSA STQLVVQFPP TNVTILANAS 
BACU000611/1-1290          GSTFSRELVL ITGPSDNQAK FTCKAGQLSA STQLVVQFPP TNVTILANAS 


                           651                                                700
ENSP00000368190/1-1241     ALRPGDALNL TCVSVSSNPP VNLSWDKEGE RLEGVAAPPR RAPFKGSAAA 
ENSBTAP00000010289/1-1241  TLRPGDALNL TCVSVSSNPP VNLSWDKEGE RLEDVAAQPR RAPFKGSAAA 
ENSTTRP00000003667/1-1240  ALRPGDALNL TCVSVSSNPP VNLSWDKEGE RLEGVAATPR SAPFKGSAAA 
bmy_05909T0/1-1212         ALRPGDALNL TCVSVSSNPP VNLSWDKEGE RLEGVAATPR SAPFKGSAAA 
BACU000611/1-1290          ALRPGDALNL TCVSVSSNPP VNLSWDKEGE RLEGVAATPR SAPFKGSAAA 


                           701                                                750
ENSP00000368190/1-1241     RSVLLQVSSR DHGQRVTCRA HSAELRETVS SFYRLNVLYR PEFLGEQVLV 
ENSBTAP00000010289/1-1241  RSVLLRLSSR DHGHRVTCSA HSTELRETVS AFYRLNVLYP PEFLGEQVLV 
ENSTTRP00000003667/1-1240  RSVLLRMSSR DHGHRVTCRA HSTELRETVS AFYRLNVLYP PEFLGEQVLM 
bmy_05909T0/1-1212         RSVLLRMSSR DHGHRVTCRA HSTELRETVS AFYRLNVLYP PEFLGEQVLV 
BACU000611/1-1290          RSVLLRMSSR DHGHRVTCRA HSTELRETVS AFYRLNVLYP PEFLGEQVLV 


                           751                                                800
ENSP00000368190/1-1241     VTAVEQGEAL LPVSVSANPA PEAFNWTFRG YRLSPAGGPR HRILSSGALH 
ENSBTAP00000010289/1-1241  VTAVEQGEAL LPVSVSANPA PEAFNWTFRG YRLSPAGGPR HRILSGGALQ 
ENSTTRP00000003667/1-1240  VTAVEQGEAL LPVSVSANPA PEAFNWTFRG YRLSPAGGPR HRILSGGALQ 
bmy_05909T0/1-1212         VTAVEQGEAL LPVSVSANPA PEAFNWTFRG YRLSPAGGPR HRILSGGALQ 
BACU000611/1-1290          VTAVEQGEAL LPVSVSANPA PEAFNWTFRG YRLSPAGGPR HRILSGGALQ 


                           801                                                850
ENSP00000368190/1-1241     LWNVTRADDG LYQLHCQNSE GTAEARLRLD VHYAPTIRAL QDPTEVNVGG 
ENSBTAP00000010289/1-1241  LWNVTRADDG LYQLHCQNSE GTAEALVRLD VQYAPTIRAL QDPTEVNVGD 
ENSTTRP00000003667/1-1240  LWNVTRADDG LYQLHCQNSE GTAEALVRLD VHXXXXXXXX XXXXXXXXXX 
bmy_05909T0/1-1212         LWNVTRADDG LYQLHCQNSE GTAEALVRLD VHYAPIIRAL QDPTEVNIGG 
BACU000611/1-1290          LWNVTRADDG LYQLHCQNSE GTAEALVRLD VHYAPIIRAL QDPTEVNIGG 


                           851                                                900
ENSP00000368190/1-1241     SVDIVCTVDA NPILPGMFNW ERLGEDEEDQ SLDDMEKISR GPTGRLRIHH 
ENSBTAP00000010289/1-1241  SVDIVCTVDA NPILPEMFNW ERLGEEGEDQ NLDDMEKMSK GSTGRLRIHH 
ENSTTRP00000003667/1-1240  XXXXXXXXXX XXXXXXXFNW ERLGEEEEDQ SLDDMEKISK GSTGRLRIHH 
bmy_05909T0/1-1212         SVDI------ ---------- ---GEEEEDQ SLDDMEKISK GSTGRLRIHH 
BACU000611/1-1290          SVDIVCTVDA NPILPEMFNW ERLGEEEEDQ SLDDMEKISK GSTGRLRIHH 


                           901                                                950
ENSP00000368190/1-1241     AKLAQAGAYQ CIVDNGVAPP ARRLLRLVVR FAPQVEHPTP LTKVAAAGDS 
ENSBTAP00000010289/1-1241  AKLTQAGAYQ CIVDNGVAPP ARGLVRLVVR FAPHVEHPAP LTKVAAAGDS 
ENSTTRP00000003667/1-1240  AKLTQAGAYQ CIVDNGVAPP ARGLVRLVVR FAPHVEHPSP LTKVAAAGDS 
bmy_05909T0/1-1212         AKLTQAGAYQ CIVDNGVAPP ARGLVRLVVR FAPHVEHPSP LTKVAAAGDS 
BACU000611/1-1290          AKLTQAGAYQ CIVDNGVAPP ARGLVRLVVR FAPHVEHPSP LTKVAAAGDS 


                           951                                               1000
ENSP00000368190/1-1241     TSSATLHCRA RGVPNIVFTW TKNGVPLDLQ DPRYTEHTYH QGGVHSSLLT 
ENSBTAP00000010289/1-1241  TSSATLHCRA RGVPNIVFTW TKNGVPLDLQ DPRYTEHTYH QGGVHSSLLT 
ENSTTRP00000003667/1-1240  TSSATLHCRA RGVPNIVFTW TKNGVPLDLQ DPRYTEHTYH QSGVHSSLLT 
bmy_05909T0/1-1212         TSSATLHCRA RGVPNIVFTW TKNGVPLDLQ DPRYTEHTYH QSGVHSSLLT 
BACU000611/1-1290          TSSATLHCRA RGVPNIVFTW TKNGVPLDLQ DPRYTEHTYH QSGVHSSLLT 


                           1001                                              1050
ENSP00000368190/1-1241     IANVSAAQDY ALFTCTATNA LGSDQTNIQL VSIS------ RPDPPSGLKV 
ENSBTAP00000010289/1-1241  IANVSAAQDY ALFTCIATNP LGSDHTNIQL VSIS------ RPDPPSGLKA 
ENSTTRP00000003667/1-1240  IANVSAAQDY ALFTCTATNP LGSDHTDIQL VSIS------ RPDPPLGLKV 
bmy_05909T0/1-1212         IANVSAAQDY ALFTCTATNP LGSDHTDIQL VSIS------ RPDPPLGLKV 
BACU000611/1-1290          IANVSAAQDY ALFTCTATNP LGSDHTDIQL VSISMVGGGC RPDPPLGLKV 


                           1051                                              1100
ENSP00000368190/1-1241     VSLTPHSVGL EWKPGFDGGL PQRFCIRYEA LGTPGFHYVD VVPPQATTFT 
ENSBTAP00000010289/1-1241  VSMTPYSVGL EWKPGFDGGL PQRFQIRYEA LETPGFLYMD VLPPQATTFT 
ENSTTRP00000003667/1-1240  VSMTPYSVGL EWKPGFDGGL PQSFQVRYEA LGTPGFLYVN VLPPQATAFT 
bmy_05909T0/1-1212         VSMTPYSVGL EWKPGFDGGL PQSFQVRYEA LGTLGFLYMN VLPPQATTFT 
BACU000611/1-1290          VSMTPYSVGL EWKPGFDGGL PQSFQIRYEA LGTPGFLYMN VLPPQATTFT 


                           1101                                              1150
ENSP00000368190/1-1241     LTGLQPSTRY RVWLLASNAL GDSGLADKGT QLPITTPGLH QPSGEPEDQL 
ENSBTAP00000010289/1-1241  LTGLQPSTRY RVWLLASNAL GDSGLADKVS QISITTPGLD QPSREPDYQL 
ENSTTRP00000003667/1-1240  LTGLQPSTRY RVWLLASNAL GDSGIADKGS QISVTTPGLD QPSGEPDYQL 
bmy_05909T0/1-1212         LTGLQPSTRY RVWLLASNAL GDSGLADKGS QISVTTPGLD QPSGEPDYQL 
BACU000611/1-1290          LTGLQPSTRY RLWLLASNAL GDSGLADKGS QISVTTP--- ---------- 


                           1151                                              1200
ENSP00000368190/1-1241     PTEPPS---- ---------- ---------- ---------G PSGLPLLPVL 
ENSBTAP00000010289/1-1241  PTEQPA---- ---------- ---------- ---------G PSEMPLLPVL 
ENSTTRP00000003667/1-1240  PTEQPA---- ---------- ---------- ---------G PSKLPLLPVL 
bmy_05909T0/1-1212         PTEQPAGKSS IPKHPLSPGK NFLVSNPTSS SFLKPVVPTG PSKLPLLPVL 
BACU000611/1-1290          ---------- ---------- ---------- ---------G PSKLPLLPVL 


                           1201                                              1250
ENSP00000368190/1-1241     FALGGLLLLS NASCVGGVLW QRRLRRLAEG ISEKTEAG-- ---------- 
ENSBTAP00000010289/1-1241  LAVGGLLLLS NASCVGGFLW QRRLKRLAEG ISEKTETG-- ---------- 
ENSTTRP00000003667/1-1240  FAVGGLLLLS NASCVGGFLW QRRLKRLAEG ISEKTEAG-- ---------- 
bmy_05909T0/1-1212         FAVGGLLLLS NASCVGGFLW QRRLKRLAEG ISEKTEAGKT LGRRIEGDGC 
BACU000611/1-1290          FAVGGLLLLS NASCVGGFLW QRRLKRLAEG ISEKTEAG-- ---------- 


                           1251                                              1300
ENSP00000368190/1-1241     ---------- -----SEEDR VRNEYEESQW TGERDTQSST VSTTEAEPYY 
ENSBTAP00000010289/1-1241  ---------- -----SEEDR VRNEYEESQW TGDRDTRSST VSTTDVEPYY 
ENSTTRP00000003667/1-1240  ---------- -----SEEDR VRNEYEESQW TGDRDTRSSM VSTTDVEPYY 
bmy_05909T0/1-1212         QRVNIQLPPC LHPGRSEEDR VKNEYEESQW TGDHDTRSSM VSTTDVEPYY 
BACU000611/1-1290          ---------- -----SEEDR VRNEYEESQW TGDRDTRSSM VSTTDVEPYY 


                           1301                                              1350
ENSP00000368190/1-1241     RSLRDFSPQL PPTQEEVSYS RGFTG-EDED MAFPGHLYDE VERTYPPSGA 
ENSBTAP00000010289/1-1241  HSMRDFSPQL PPTMEEVSYP LG-EALEEEN MAFPGHLYDE VERVYAPSRA 
ENSTTRP00000003667/1-1240  HSMRDFSPQL PPMLEEVSYP RGVTGLKEEN MAFPGHVYDE LERLYAPSGA 
bmy_05909T0/1-1212         HSMRDFSPQL PPTLEEVSYP RGLTGLEEEN MTFPGHVYDE VERLYAPSGA 
BACU000611/1-1290          HSMRDFSPQL PPTLEEVSYP RGLTGLEEEN MTFPGHVYDE VERLYAPSGA 


                           1351                                              1400
ENSP00000368190/1-1241     WGPLYDEVQM GPWDLHWPED TYQDPRGIYD QVAGDLDTLE PDSLPFELRG 
ENSBTAP00000010289/1-1241  WGPLYDEVQM DSCDFRWPGD RYEDARGIYD QVAGDLDPVE PDAIPFELRG 
ENSTTRP00000003667/1-1240  WGPLYDEVPM GSCDLYWPED RYEDARGIYD QVAGDLDPME PDALPFELRG 
bmy_05909T0/1-1212         WGPLYDEVPM ---------- ---------- ---------- ---------- 
BACU000611/1-1290          WGPLYDEVPM GSCDLYWPED RYEDARGIYD QVAGDLDPME PDVLPFEMRG 


                           1401                                              1450
ENSP00000368190/1-1241     HLV 
ENSBTAP00000010289/1-1241  HLV 
ENSTTRP00000003667/1-1240  QLV 
bmy_05909T0/1-1212         --- 
BACU000611/1-1290          QLV