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

Citations (SAM, SAM-T99, HMMs)

Sequence numbers correspond to the following labels:

    • T0335 SR384, Bacillus subtilis, 85 res
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   1 MISNAKIARINELAAKAKAG.VITEEEKAEQQKLRQEYLKGFRSSMKNTLKSVKIIDPE.GNDVT
   2 ---PKKIARINELAKKKKTE.GLTPEEKVEQAKLREEYIEGYRRAVRHHIEGIKIVDEE.GNDVT
   3 ----KKIARINELAKKKKTE.GLTPEEAVEQAKLREEYIAGYRRAVRHHIEGIKIVDEE.GNDVT
   4 MLSKEKIARINELANKAKVE.ELSAKEKVEQQELRKEYLEAFRGGMRHHIEGMKVVDQE.GTDVT
   5 ----KKIARINELAKKKKIE.GLTPEEAVEQAKLREEYIAGYRRAVRHHIEGIKIVDEE.GNDVT
   6 ---PKKIARINELSKKKKTV.GLTGEEKVEQAKLREEYIEGFRRSVRHHVEGIKLVDDE.GNDVT
   7 ----AKIDRINELARKKKAE.GLTEEELQEQAALREEYIEGYRRSVRAHIEGIKVVDED.GNDVT
   8 ---PKKIARINELAKKKKTV.GLTGPEKVEQAKLREEYIEGYRRSVRHHIEGIKLVDEE.GNDVT
   9 MISKELLARINELAHKAKAE.GLTELEEAERQELRQKYLKEFRAGFRQQVEMLQVYDKD.GKEVT
  10 MISNAKIARINELAAKAKAG.VITEEEKAEQQKLRQEYLKGFRSSMKNTLKSVKIIDPE.GNDVT
  11 ----TKIDRINELARKKKTE.GLTGAEKLEQERLREEYIEGYRRSIRHHIEGLKIVDEE.GNDIT
  12 --PQELIDRINELSKKKKEE.GLTSEELAEQKELRETYLSLFRENFRSHIEMLQVYDKN.GKEVT
  13 --DQKRLDRINELAHKAKAE.GLTPEETMERQELRDAYLKDFRSSFRSQVEMLQVYDKE.GKEVT
  14 MISKEKIARINELAKKAKSG.SLTDEEKAEQQKLRQEYLQGVRASMKNTLKTVTIVDPE.GNDVT
  15 --MQKLIKRINELAKKAKEE.GLSDLEIIERKDLRQKYLKKFRESFRSQVEMMQIFDKE.GKEVT
  16 MLEKAKIDRINELSKKKKAG.TLTADEKVEQEKLRKEYIKSFRTHMKGTIENTTIIDPK.GNDVT
  17 MLEKAKIDRINELSKKKKAG.TLTSAEKVEQDKLRKEYIKSFRTHMKGTIENTTIIDPN.GKDVT
  18 MLSQEQLDRINELANKSKVE.PLTDAETAEQKELRTAYLEAFRGSFKNQMMGIKIVDEE.GTDVT
  19 MLEKAKIDRINELSKKKKAG.TLTATEKVEQDKLRKEYIKSFRTHMKGTIENTTIIDPN.GTDVT
  20 MINHELVERINFLAKKAKAE.GLTEEEQRERQSLREQYLKGFRQNMLNELKGIKVVNEE.GTDVT
  21 MLEKAKIDRINELSKKKKAG.TLTATEKVEQDNLRKEYIKSFRTHMKGTIENTTIIDPN.GKDVT
  22 MLSKDKLARINALSKKAKAE.GLTESEAKEQQELRQEYLKVFRQSMTNHLHTIKVVDEE.GKDVT
  23 MLSKQKIERINELAKRAKTT.GLTEDELREQKKLREEYIQQFRQSFKNQLHSVTVVDGA.GNDVT
  24 --MKNTLFRINELSKKEKAT.GLTVDEKQEQQMLRQNYTQTFRGSLDSILLNTKIVDQN.GLNVT
  25 ------------LLKKKKTE.GLTPEEKVEQAKLREEYIEGYRRAVRHHIEGIKIVDEE.GNDVT
  26 --MQNILFRINELSKKERTS.GLTVDEKQEQQMLRQNYTETFRGSLDSILLNTKIVDPN.GLNVT
  27 -----NIDRINELARKKKEH.GLTNEEAKEQTKLRRQYLEEFRKGFKQQIENTKVIDPE.GNDVT
  28 -----NIERINELAKKKKEV.GLTQEEAKEQTALRKAYLESFRKGFKQQIENTKVIDPE.GNDVT
  29 -----NIDRINELAKKKKEQ.GLTEAEAKEQSKLRKKYLEAFRKGFKQQIESTKVIDPE.GNDVT
  30 MLSHELIERINFLARKAKNE.GLTEEEQRERQSLREQYLKGFRQNMLNELKGIKIVNEE.GKDIT
  31 MLSHELVERINFLAKKAKAE.GLTEEEQRERQSLREQYLKGFRQNMLNELKGIKVVNEQ.GTDVT
  32 MLSKDKLDRINVLSKKSKEE.GLTTEEKAEQKKLREEYLKNVRSSFKNQLSTVTVLDPE.GKDVT
  33 ----NILFRINELSKKEKAT.GLTVDEKQEQQMLRQNYTQTFRGSLDSILLNTKIVDQN.GLNVT
  34 ----ALLKRINELAHKNKEE.GLTEEETKERDRLRKEYLKNFREAMRSNIEMMRIFDKE.GKEVT
  35 ----NILFRINELSKKEKVS.GLTVDEKQEQQMLRQNYTQTFRGSLDSILLNTKIVDQN.GHNVT
  36 ----NTLFRINELSKKEKAT.GLTVDEKQEQQMLRQNYTQTFRGSLDSILLNTKIVDQN.GLNVT
  37 ----NILFRINELSKKEKAT.GLTVDEKQEQQMLRQNYTETFRGSLDSILLNTKIVDQN.GLNVT
  38 MLPKDKMARINELANKAKTA.GLTNEEAKEQTKLRSEYLQTFRSNMLTTLKGVTIMDPK.GNDVT
  39 -PSQELIERINFLAKKAKAE.GLTEEEQRERQSLREQYLKGFRQNMLNELKGIKVVNEE.GTDVT
  40 ----ELLDRINQLANKEKVE.SLSVEEKQEQHQLRQEYLGMIRGQVLHTFSTMKVLDPL.GQDVT
  41 -LAKHKLARINELAKKAKTA.GLSAEEAFEQAKLRREYIQAFRKAMTDMLHTVTVIDPS.GNDVT
  42 ------LDRINELANKEKVQ.PLTVAEKQEQHALRQDYLSMIRGQVLTTFSTIKVVDPI.GQDVT
  43 ------IKRINELAKKKKEQ.GLTENEAKEQSKLRKAYLESFRKNFKQQIESTRVIDPE.GNDVT
  44 ------LDRINELANKEKIE.TLSIEEKEEQQTLRQEYLKMIRGQVIHTFSTLKVVDPL.GEDVT
  45 ---ENLIKRINELTKISRER.ELTPDELEERKKLRSAFLENFRAGFRQQLEDTVVIDKD.GKEVT
  46 ---EKLIKRINELTKISRER.ELTPGEVEERKKLRSAFLENFRAGFRQQLEDTVVIDEN.GKEVT
  47 --TNEQVERINELARKKKAE.GLSEAELEEQALLRRAYLDSVKANFRSQVETIKVIDEKtGEDVT
  48 --TNEQVERINELARKKKAE.GLSEAELEEQAFLRRAYLDSVKANFRSQVETIKVIDEKtGEDVT
  49 ---KEKLDRINELSKLAKTV.GLTKKQAMEQKALRNEYLSAFRSSFTDHLHTVKVVDAK.GNDVT
  50 -----LLKNINELAAKQKSE.GLTAFEKERQAALRQEYLKKIRGTVQDNLHHVTIIDPL.GDDVT
  51 -SMPEVIQEINRLAKIKKDR.ELTSEESAYREELKVLYLNYFRNGFEQQLKSTKVIDAQ.GNDVT
  52 -----VRKRINELYKKKQES.GLTEAEEAERKELHKQFIANFRAGFKQQLDSLVIVDDQ.GKDVT
  53 -----LRARINELAAKQKTSkGLTEAEKKEQKQLRQKFLENFRKTFRSQVEILQVFDKN.GKEVT
  54 -ITKELVDRINALARKQRAE.GLTPAEKEEQHQLRQQYLKGIRGQVIDQLSRIKFVEDE.NCGCN
  55 -----VLKRINTLAQKEREQ.GLTSEEQALRVDLRQEYLRTIREQFNKTLMGVTIYDPT.GEDVT
  56 ---KKVTDRINELYHKKENE.GLTPEEEEERKELHKKFLANFRAAFKQDVENMVILDKN.GKEVT
  57 -----KIDRINELYHKSQAE.GLTEEEKAEQQKLRQEYIAAIRQNMRGTLNNISLLNPD.G----
  58 MVSKEKINRINELARIAKER.VLTKLEEEEQQILRKEYIEAFRKSFRKQLDNIELV---.-----
  59 MFDKKKLDRINELAKKNKEG.ILSADEIKEREILRKEYLENFRAHFRSRLDSVKVVSP-.-----
  60 -VSAEKIARINVLAKISKER.DLTVAEQEERALLRKEYINSFRKSFKQKLDCIEIV---.-----
  61 MITREMIDRINFLYHKSQTE.GLTEEEKEEQKRLRQEYVKEIKERVRRELESIK-----.-----
  62 MITKEMIDRINFLYHKSKSE.GLTEEEKEEQRRLREAYVKEIKERVKREL---------.-----
  63 ---NTLIERINELSRKQRTI.GLEEWEKAEQEALRQEYLGFIRGQVIDSLSQVK-----.-----
  64 ----AIIKRINELAKKKREQ.GLNPEELQEQKKLYDIYLNGIRQQVKSQLEAIS-----.-----
  65 MEMKKLIERINFLYKKSKED.GLTEEEKKEQDTLRREYIEIIKGNVKVQLS--------.-----
  66 ---DELTKRINELHKKHKEE.GLSEDEHKEREELRKEYINRFKSNLREQLKGI------.-----
  67 ---EELIERINYLYKKSKEE.GLTEEEKIEQAELREKYLKNIRSNFRAQLESI------.-----
  68 -EMKDIIAKVNYYAKLSKER.KLTEEEIKDREIYRRMYLDQFKAQVKEHLDNIEIVDE-.-----
  69 ----EVIEKINSLYKTSQER.ELSNEEKDLQSRLRKRYIDNVKKNFRAQLEGIE-----.-----


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   2 PEKLRQVQREKGLHGRSLDDP-
   3 PEKLRQVQREKGLHGRSLDDP-
   4 PEKLKKIQREKGLH--------
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   6 PEKLRQVQREKGLHGRSLDDP-
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   9 PEKVRQVQRDRGLR--------
  10 PEKLKREQRNN-----------
  11 PAKLKEIQRQKGIHGRKPE---
  12 PEKVKKIQRERGLR--------
  13 PEKVKDIQREKGLR--------
  14 PEKLKQEKRN------------
  15 PEKVKEVQRKKGLR--------
  16 PHKIKQMR--------------
  17 PHKVKQLR--------------
  18 PEKLKQAQE-------------
  19 PHKVKQLR--------------
  20 PTKLKALKKQ------------
  21 PHKVKQLR--------------
  22 PKKLKES---------------
  23 PDKLKQSK--------------
  24 PAALQDAQIRL-----------
  25 PEKLRQVQREKGLHGRSLDDP-
  26 PVALQDAQIRL-----------
  27 PEKLKKIQEE------------
  28 PEKIKEIQQK------------
  29 PEKLKKIQE-------------
  30 PAKLKALKKKN-----------
  31 PAKLKALKK-------------
  32 PQKLRDYQD-------------
  33 PAALQDAQIRL-----------
  34 PEKVREIQRKKGLR--------
  35 PAALQDAQIRL-----------
  36 PAALQDAQIRL-----------
  37 PAALQDAQIRL-----------
  38 PKKIKKLR--------------
  39 PAKLKALKK-------------
  40 PDKVYDLREEY-----------
  41 PKKLKESQR-------------
  42 PDKVYDLRQQYG----------
  43 PDKVKKI---------------
  44 PDKVYQLREEM-----------
  45 SEKAKEAQRRKGLR--------
  46 SEKAKEAQRRKGLR--------
  47 PDKLKEIQRKNGM---------
  48 PDKLKEIQRKNGM---------
  49 PQKLKDSK--------------
  50 PKKLKEIQ--------------
  51 PSKLKNE---------------
  52 PDKAKQIQKK------------
  53 PKKVIDIQKKKGL---------
  54 ----------------------
  55 PEKLKEEQQ-------------
  56 SEKAKQAQRKKGLR--------
  57 ----------------------
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