(c) 1992-2000 Regents of the University of California, Santa Cruz
Sequence Alignment and Modeling Software System
http://www.cse.ucsc.edu/research/compbio/sam.html

Citations (SAM, SAM-T99, HMMs)

Sequence numbers correspond to the following labels:

    • T0218 TM1739, Thermotoga maritima
                   10                20          30         40         
                   |                 |           |          |         
   1 ...MQ.VRIERAE.RI..ESE....LEE..HVGD.QTFVEES.RF.LEEDEQREGE.ILDQI..I
   2 ...MQ.VRIERAE.RI..ESE....LEE..HVGD.QTFVEES.RF.LEEDEQREGE.ILDQI..I
   3 wkmMS.LDNHVLE.E-..SSE....IGEv.NVET.SEWKPIN.GC.IPEDYDEEN-.-L-KI..A
   4 gqaMEdQAIPDLE.EV..YDQ....RTG..GAGKvQTILETPnRR.LYRKVELIPR.TKQHVfrY
   5 agsGP.VDLE-AE.ELapAGE....AGG..APGE.ARHLESP.PG.ARDPGRPDGRsRLR--..Y
   6 irlDP.WPIDTFEgQL..TLKpfagLVF..DVET.DRWEAIP.TLgIPES------.-VREV..L
   7 ...MA.WRLLRLE.PL..GLQ....EGPasPPEP.GAFRPLE.EP.WEAKRGGQAP.WPEPL..Y


        50                60             70            80              
        |                 |              |             |              
   1 FVDGKR..RS..FV..RI..TTDEG...I.T.GIFAELC..VGAVI..WDREGG.....TK.TLF
   2 FVDGKR..RS..FV..RI..TTDEG...I.T.GIFAELC..VGAVI..WDREGG.....TK.TLF
   3 FIDGVR..RTenIV..YL..EDPNSasvV.E.GAFVSIG..AGAMV..LSY-GK.....VN.SLE
   4 FLDGSV..RTy.FVgtVI..EHDRS...S.P.VQVAQVG..AAAVR..REDDGRih7vqRK.LLL
   5 FLDGVQstRE..IC..RI..GAAPV...VaT.TVAAAIAerSGRRLarMRFDGP.....PE.-LV
   6 VVDGKP..RM..EA..RLlmDDDSGe..L.HlAAFGAYV..VGAVS..LCPHGT.....RQaELL
   7 FVDGRE..RA..EA..LV..AQGPR...L.-.ALLGCVA..AGAVA..LKG-GR.....VE.VL-


      90           100                     110                 120     
      |             |                       |                   |     
   1 SPDKPPVK...ERV.L..GFSQ.....S..F...QEE..GY....EEV.....GGIL.FKVVK.E
   2 SPDKPPVK...ERV.L..GFSQ.....S..F...QEE..GY....EEV.....GGIL.FKVVK.E
   3 DSLKKSVV...KRY.F..LLRD.....N..VdisQPTivFL....TQT.....GKLE.FKVDR.A
   4 MLDKSSLS...D-V.LwhALEQ.....A..A...ASTp.GL....EVVdt6ddGYLEaVHVEE.R
   5 RAVILPVEagdERI.A..ELRDllvqtG..L...EPL..GY....EEA.....PGSP.WHVLS.S
   6 DVR----A...RRV.L..AYSS.....DapL...EPA..RLsprnPHT.....GVLD.YEPYAfS
   7 -GLR---V...RRVgV..GLEE.....A..Lwa.GEL..VY....EPA.....PTL-.----G.E


          130             140           150           160              
           |               |             |             |              
   1 GKDA.MQ.S...IDLY..MRSLEI...EEVRK.HMDKNIL..IVKDGP..AA...RE.LPFEEN.
   2 GKDA.MQ.S...IDLY..MRSLEI...EEVRK.HMDKNIL..IVKDGP..AA...RE.LPFEEN.
   3 KKEL.SP.Y...VNEL..MANLELwvaQQVYKaKMAD--L..MITDG-..TL...HY.VAKAKN.
   4 RSRG.AH.K...ANWK..MREVEIaiaRELQR.T-EDEWL..ILDGGL..GN...EY.MDWKGP.
   5 TEHVpAP.D...PSDYagLRALAFgraRTLRE.RLETELLrrWEEDDR..VLdndDW.LAADGQ.
   6 GRQV.EG.PraaVQKL..MLQDE-...QKLSR.QLASPIA..L-EEGEadAL...PEsLVLQDGp
   7 GLEG.LQaG...LRAA..REALE-...KEVAE.GLEGGLL..VV-DGP..-V...RL.L--REG.


      170            180                 190       200               21
       |              |                   |         |                 
   1 ..VG.....PIGLVKNIGVT...ELS....KEDF...KKLRFLKKGKRSK.MF...VSS....RE
   2 ..VG.....PIGLVKNIGVT...ELS....KEDF...KKLRFLKKGKRSK.MF...VSS....RE
   3 ..LP.....FIGYVKKHRKI...YLY....PEHI...KVLQELKVGQRTPiIL...IHS....QP
   4 ..-P.....LIGVAKSFRRDvqfHLGtgpqAQRLtlyALLARLEVGHRTC.VFpr.WPG....ES
   5 ..LGrpsprAVGLVKSVARP...EFG....GAEA...ELLLDLAPGMRTT.SF...IPGwqvrRA
   6 vrLGgggsaVVGYVKTLHTD...YLG....ADRI...GLLSSLKCGERTP.ILrfrVGD....RG
   7 ..-P.....LLGYIKTHWVR...YLP....KERE...ALLEALAPGERTP.AFr..VHR....K-


      0                 220                    230       240           
     |                   |                      |         |           
   1 T.....PL.....KKVGAYVKL.I...DGE....G.IR....GLVRLETYVKDDNQ.I.P.YIR.
   2 T.....PL.....KKVGAYVKL.I...DGE....G.IR....GLVRLETYVKDDNQ.I.P.YIR.
   3 Tmd6nkSF.....DKYTWYVKL.N...ENE....G.IT....SVARLE--VPAELG.L.E.EAV.
   4 R.....EG.....KVVFWYVRI.R...PQR....G.LDyplmGVVKVEMPNPSQEP.V.DsELV.
   5 V.....TD.....QRASWYVRC.WppqPGA....GaLG....SLMRVEAARGTDPR.MaD.EIT.
   6 G.....TFse7reQRFTWYVRL.C...DAPfyqhP.LA....GIMRLEMHAPEDSSfV.P.AAVq
   7 -.....GL.....ELASWYVRLpL...PPE....G.LRpplaGLLRVETPLAG-PF.L.E.L--.


      250         260         270       280         290          300   
       |           |           |         |           |            |   
   1 KVFD..DLAKTLPHL.TADL.PIPRLPENILPIQFLEENLSYYL..TDKNYMNT.RLF..AYIGR
   2 KVFD..DLAKTLPHL.TADL.PIPRLPENILPIQFLEENLSYYL..TDKNYMNT.RLF..AYIGR
   3 KLAN..LTAYLMPKFaSAEF.NDKRAPQNLIPIKYLENYLRRRL..GSQSLIR-.RLIaqRIMER
   4 DWISgaLVAER--SV.TPYG.RDSRWHAHLYPIYIAETVIKNHF..YSPQVLKA.-AI..RWPER
   5 RWI-..-LAERAP-L.-AK-.PDPRWPAMIYPIHHVERTLKPAVqgSERAYLRLqRQL..RQHGR
   6 QIAD..LSGALLSKL.GSKLhKDSRAPQNLIPTAALEQAMNRSM..GNLELVTR.R-I..RTHLV
   7 ----..---------.----.-----------------------..--------.---..-----


          
         
   1 ....
   2 ....
   3 v...
   4 rg..
   5 ....
   6 tqg.
   7 ....