
This file is an example of the sort of broken MSF many programs produce
Features that cannot be relied on are the header !!AA_MULTIPLE_ALIGNMENT 1.0
that should be on the first line, checksum, date type etc.
The other main variance is position numbers on the line above the sequence
which is on only the second block in this test

 D:\MHC.msf  MSF: 184  Type: N  January 01, 1776  12:00  Check: 0 ..

 Name: TrvuDRB2         Len:   184  Check:     0  Weight:  1.00
 Name: TrvuDRB3         Len:   184  Check:     0  Weight:  1.00
 Name: MaruDAB1         Len:   184  Check:     0  Weight:  1.00
 Name: ModoDAB1         Len:   184  Check:     0  Weight:  1.00
 Name: MaruDBB          Len:   184  Check:     0  Weight:  1.00
 Name: TvMHC2_5         Len:   184  Check:     0  Weight:  1.00
 Name: HosaDOB          Len:   184  Check:     0  Weight:  1.00
 Name: PatrDOB          Len:   184  Check:     0  Weight:  1.00
 Name: OrcuDOB          Len:   184  Check:     0  Weight:  1.00

//

       TrvuDRB2  ---MLSVLLP KGVWIEVLAV TLLVLASQVA AGRHA-PEHF TEQGKSECHF
       TrvuDRB3  ---MPCVLLP KGIWIEVLAV TLLVLTSQVA SGRHA-PEHF TGQFKYECHF
       MaruDAB1  ---------- --------AV ILLVLTSQVA AGRHA-PKDF LWQAKSECHF
       ModoDAB1  ---MVSAQPL GGIWMEVLVV TLLVLTAQVA ADRRP-PKHF TEYSTSECYF
        MaruDBB  ---MVDVRIS AGCWKIGLLM TSMLLSLSAS WARDI-PEDF VYQYKAECYF
       TvMHC2_5  ---MVDVWIS ADYWKIGLLM TLTVLSLSAS WARDI-PEDF MRQHKAECYF
        HosaDOB  ------MGSG WVPWVVALLV NLTQLDSSMT QGTDS-PEDF VIQAKADCYF
        PatrDOB  ------MGSG WVPWVVALLV NLTRLDSSMT QGTDS-PEDF VIQAKADCYF
        OrcuDOB  ------MDSK WVPWVVALLV NLIRLDYSMT Q-GDS-PEDF VIQAKADCYF

                 51                                                   100
       TrvuDRB2  VNGTETVRFV ERHVYNREEF MRFDSDVGEY VALTELGRRQ AEYYNS-QKD
       TrvuDRB3  VNGTEHVRFV ERHIYNREEF MRFDSAVGEF VALTELGRRH AELWNS-RKE
       MaruDAB1  ENGTQHVRFM DRYFYNRQEA LRFDSDVGEY VAVSELGRLQ AELWNK-REE
       ModoDAB1  INGTDQVRLI ERYIYNREEY VRFDSNVGVY EAVTELGRGI AEHLNS-QKE
        MaruDBB  TNGSERVRFV VRDIYNGEEF ARFDSDVGVY VPVTELGRPD AEYWNS-QEE
       TvMHC2_5  TNGTERVRFV ERYIYNDQED VRFDSEVGEY VAVTELGRPD AEYWNS-QKE
        HosaDOB  TNGTEKVQFV VRFIFNLEEY VRFDSDVGMF VALTKLGQPD AEQWNS-RLD
        PatrDOB  TNGTEKVQFV VRFIFNLEEY VRFDSDVGMF VALTKLGQPD AEQWNS-RLD
        OrcuDOB  TNGTEQVRVV VRFIFNLEEY AHFDSDVGMF VALTELGQPD AESWNN-RPD

       TrvuDRB2  YMESRRGQVD NYCRHNYE-V IEPFSVRRRV EPEVTVYPSK TAPLGHHNLL
       TrvuDRB3  ILEGRRAQVD -TCRHNYE-V IEPFSVRRRV EPEVTVYPSK TAPLGHHNLL
       MaruDAB1  ILEDARAAVD TLCRHNYE-I LERFLVPRRV EPEVTVYPSK LAPLGHHNLL
       ModoDAB1  RLDYLLAAVD TYCRHNYE-I SEPFLVRRRV EPEVLVYPSK TAPVGHHNLL
        MaruDBB  ILEKERAYVD TLCRHNYE-A AKPFTLDRRV QPRVTISPSK --TDALQHLL
       TvMHC2_5  LLEEKRAEVD TLCRHNYE-A GKSFTVDRRV QPRVTISPSR --TEALQHLL
        HosaDOB  LLERSRQAVD GVCRHNYR-L GAPFTVGRKV QPEVTVYPER TPLLHQHNLL
        PatrDOB  LLERSRQAVD GVCRHNYR-L GAPFTVGRKV QPEVTVYPER TPLLHQHNLL
        OrcuDOB  ILERSRRSVD FLCRRNYR-L GAPFTVGRKV PPEGTVIPER TPVCGQQPAA

       TrvuDRB2  GVGLIVHRRS QKGNRGSQPT GLLS------ ----
       TrvuDRB3  GVGLVVHRRS QKGNRGSQPT GLLS------ ----
       MaruDAB1  GVGLIVYKRN QKGNRGSQPT GLLS------ ----
       ModoDAB1  GGGLIVHMRS QKANRGSQPA GLLS------ ----
        MaruDBB  SVGLIIHLKN KKGHTGPQPT GLLG------ ----
       TvMHC2_5  GVGLIIHLKN QKGRTGPQPA GLLR------ ----
        HosaDOB  LVGIVIQLRA QKGYVRTQMS GNEVSRAVLL PQSC
        PatrDOB  LVGIVIQLRA QKGYVRTQMS GNEVSRAVLL PQSC
        OrcuDOB  LVGTIIHIRA WKICGDTALC CC-------- ----
