(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:

    • T0263 1wd6, Escherichia coli
                        10           20          30        40        50
                        |            |           |         |         |
   1 ...M..A...T.L.LQLHFAFNGPF.G.DAM.AEQLKPLA.E.SINQEPGFLWKVWTESEKNHEA
   2 ...M..A...T.L.LQLHFAFNGPF.G.DAM.AEQLKPLA.E.SINQEPGFLWKVWTESEKNHEA
   3 ...M..A...Y.L.LQVDFPFEGPF.G.EEM.EKGFWDLA.K.SINEEEGFHWKIWTENQETKEA
   4 mk.M..A...Y.L.LQVDFPFEGPF.G.EEM.EKGFWDLA.K.SINEEEGFHWKIWTENEETKEA
   5 ...M..A...Y.L.LQVDFPFEGPF.G.EEM.EKGFWDLA.K.SINEEEGFHWKIWTENQETKEA
   6 ...M..A...T.L.LQLHFAFNGPF.G.DAM.AEQLKPLA.E.SINQEPGFLWKVWTESEKNHEA
   7 ...M..A...Y.V.LQVDFPFEGPF.G.EEM.EKAFLDLA.K.SINEEEGFHWKIWTENEETNEA
   8 ...M..A...T.L.LQLHFAFNGPF.G.DAM.AEQLKPLA.E.SINQEPGFLWKVWTESEKNHEA
   9 ...M..Sk..T.L.LQIHFNFSGPF.G.EEM.TQQLVGLA.E.SINEEPGFIWKIWTESEKNQQA
  10 dttM..A...K.L.LQVDFEFNGPF.G.EDM.AKAFVELA.E.SINREPGMIWKIWTESAKDKLG
  11 ...M..A...K.L.LQVDFEFHGPF.G.EEM.SNTLVDLA.K.SINQEPGMIWKVWTESEKDKLG
  12 ...M..G...Y.V.LQVDFKMNGPF.G.DEM.AEQFSGLA.K.SINEEEGFMWKIWTESPERNEA
  13 ...M..S...Y.I.LQVDFPYTGPW.G.NEM.TKAMEGLA.R.SIAEEPGLIWKIWTVNETTNEA
  14 ...M..T...T.L.LVFEFPSTGPF.G.ADA.ETAYADLA.H.DIAGEAGLIWKVWTEDPQREVA
  15 ...M..P...S.L.LQIHFNFPAELmG.PAL.TAAAIPLA.E.SITKEPGFISKIWTENPRTCEA
  16 pstS..S...R.I.LQINFKYNNST.-.SDF.RKQMKDVA.P.RIAKAPGLRWKIWSIDEGNKEA
  17 ...M..S...N.LiLQINVTYDCSQ.-.AEL.ENVFSHAV.G.AIAAFPGLTWKIWIINDGTKEA
  18 ...M..I...T.T.V-VQFHMATPI.SlEEA.KKRFESSA.P.KYQKLPGLIRKYYIRSEDGTTA
  19 ...M..I...T.E.IVF-FKLQPDV.DlPTL.RERYEATA.A.KWAVNPDLLHKWYFYDAATHEG
  20 ...M..I...T.A.I-VRYRLPADI.D.RAAcRDHFESIA.P.GFQSVKGLLSKHFIWSE-RGVA
  21 ...M..I...S.T.M-TTFTLRKPI.TrEEA.RAIFLSTA.P.KYQAVPGLIRKTYILSEDGTVA
  22 ...M..I...TaI.VQFSLPRALTR.-.AEV.KDLFAQVA.G.QFRGVPGLVRKYFLLSEDGTTG
  23 rpqM..SqpnR.VyLYAEFQNSAPF.-.---.TKAIWGDAnP.AMQTVPGLRSKTWLSGLNTQSV
  24 ...MpvS...K.VfLYAEYQVSIPF.-.---.SQIDWKSA.NvEMKKFPGLKSKTWLSALNTNTV


              60           70           80           90       100      
              |            |            |            |         |      
   1 GGIYLFTDEKSALA.YLE..KHTARL.K.N.LGVEEVVAKVFD...VNEPLSQINQAKLAMATLL
   2 GGIYLFTDEKSALA.YLE..KHTARL.K.N.LGVEEVVAKVFD...VNEPLSQINQAKLA-----
   3 GGIYVFEEKQDAEK.YAE..MHKNRL.E.A.AGVKDIRVKIFN...INEKLTELNRGYTK-----
   4 GGIYVFEEKQDAEK.YAE..MHKSRL.E.A.AGVKDIRVKIFN...INEKLTELNRGYIK-----
   5 GGIYVFEEKQDAEK.YAE..MHKNRL.E.A.AGVKDIRVRIFN...INEKLTELNRGYTK-----
   6 GGIYLFTDEKSALA.YLE..KHTAQL.K.K.LGVEEVVAKVFD...VNEPLSQINQAKLA-----
   7 GGIYVFEEKQDAEK.YAE..MHKNRL.Q.T.FGVKDIRVRIFA...INEKLTKLNRGYSK-----
   8 GGIYLFSDEKSALT.YLE..KHTARL.K.N.LGVEEVVAKVFD...VNVSLSQFNQAKLA-----
   9 GGIYLFESEETAQA.YIK..KHTARL.K.N.LGVDEVTFTLFG...VNDALTKINHGNLCR----
  10 GGIYLFEDEASAQA.YLQ..MHTARL.Q.Q.MGIGEVRGHIFD...INQPLTAINNSPINQR---
  11 GGIYLFEDEATAQA.YLE..MHAARL.R.K.MGVVEVRGQIFD...INVPLTTINQGPIGG----
  12 GGIYVFETKETAEK.YLD..MHSKRL.A.G.FGVTGVNAKIFA...INSKLSEITNGPVKQ----
  13 GGIYLFSDISAAKA.YLA..MHTARL.K.S.FGIPHVNGKIFL...VNEALSQLDRAPI------
  14 GGVYLFADEASTQA.YVE..KHTARL.A.G.FGITDITATSYE...VNEVLSRIDHAVLGR----
  15 GGIYLFEDEASALA.YAT..MHEQRV.L.A.MGASAVQFKLFD...VNEPLSRLTR---------
  16 SGFYLFEDEKSLNN.YVEn.IFNVGM.R.NnSAISNIVVKKFN...ILEDPTIVTRGPISQLK--
  17 GGLYCFDSETALTA.YVNspIITA-L.KaN.PLLPTVQIKAFE...AITALTTQTRGPVPALALQ
  18 GGIYLWESREAAESvYGG..EWRARV.A.AlYGAEPV-MSWFDsp.VIVDNAD---G--------
  19 GGVYVWRTREAAAR.WHGd.DYKAMV.E.RvYGFPPV-IRVLD...TVAHV-DATQGRYEIVGLS
  20 GGVYQWASQADAEAfYSG..PWRDGIvR.R.YGMEP-EIEFFT...VFAK-TDNEAGTVTVV---
  21 GGLYLWNSRAEAEAlYTP..EWRAFVtE.K.YGTEPVVA-YFEspvVVDNLTQQ---ILS-----
  22 GGVYLWESRQAAERfYAG..GLLRQIaE.Q.YGSEP-SVFYFEsp.VIVDNTVAE--PVA-----
  23 GGFYEFDSVENARA.YAE..GMLAGFaK.A.AGAS-LTVKLFDgd.VVAEAS---RGMSSPYY--
  24 GGFYEFDSVENAQN.YID..GILIPF.A.K.QVNGNLTVKLFDgd.ITKEAST---GMS------


       110       120       130       140       150       160       170 
        |         |         |         |         |         |         | 
   1 QLHFAFNGPFGDAMAEQLKPLAESINQEPGFLWKVWTESEKNHEAGGIYLFTDEKSALAYLEKHT
   2 -----------------------------------------------------------------
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  17 SSVGA------------------------------------------------------------
  18 -----------------------------------------------------------------
  19 G----------------------------------------------------------------
  20 -----------------------------------------------------------------
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  22 -----------------------------------------------------------------
  23 -----------------------------------------------------------------
  24 -----------------------------------------------------------------


            180       190       200  
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   1 ARLKNLGVEEVVAKVFDVNEPLSQINQAKLA
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