(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:

    • T0304 NESG:Hunt:1, Escherichia coli, 122 res
              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MSDTLPGTTLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
   2 MSDTLPGTTLPDDNNDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDADSYHLDQA
   3 MSDTLPGTTHPDDNNDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDADSYHLDQA
   4 MSDTLPGTTLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
   5 MSDTFSGTTHPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
   6 MSDTLPGTTHPDDNNDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDADAYHLDQA
   7 MSDKLSGITHPDDNHDRPWWGLPCTVRPCFGARLVQEGNRLHYLADRAGIRGRFSDADAYHLDQA
   8 MSDTLPGTTPPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDVDAYHLDQA
   9 MSDTLPGTTLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  10 MSDTLPGTTLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  11 MSDTLPGTTLPDDNKDLPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  12 MSDTLPGTTLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHPDQA
  13 MSDALSGTMLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  14 -SDTLPGTTHPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDADAYHLDQA
  15 MSDKLSGITHPDDNHDRPWWGLPCTVRPCFGARLVQEGNRLHYLADRAGIRGRFSDADAYHLDQA
  16 MSDTLPGTTLPDDNKDLPWWGLPCAVTPCFGARLVQEGNRLHYLADRAGIRGRFSNADAYHLDQA
  17 -SDTLPGTTHPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDADAYHLGQA
  18 MSDTLPGTTLPDDNKDRPWWRLPCTVTPCFGARLVQEGNQLHYLADRAGIRGRFSNADAYHLDQA
  19 -SDTLPGTTPPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGRFSDVDAYHLDQA
  20 -SDTLPGTTLPDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRTGIRGRFSNADAYHLDQA
  21 -SDTLSGTTHPDDNHDHPWWGLPCTVTPCFGVCLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  22 -SDTLPGTTHPDDNHDRLWWGLPCTVTPCFGARLVQKGNRLHYLADRAGIRGRFSDADAYHLDQA
  23 -SDTLPGTTHPDDNHDRLWWGLPCTVTPCFGARLVQKGNRLHYLADRAGIRGRFSDADAYHLDQA
  24 MSDKLSGITHPDDNHDRPWWGLPCTVRPCFGARMVQEGNRLYYLADRAGIRGRFSDADAYHLDQA
  25 -SDTLHETNYPDDNNDRPWWGLPCTVTPCFGARLVQEGNQLHYLADRAGIRGQFSDADAYHLDQA
  26 -SDTLSGTTHPDDNHDHPWWGLPCTVTPCFGVCLVHQGNRLHYLADRAGIRGLFSDADAYHLDQA
  27 -SDTLHETNYPDDNNDRPWWGLPCTVTPCFGARLVQEGNQLHYLADRAGIRGQFSDADAYHLDQA
  28 -SDTLHETNYPDDNNDRPWWGLPCTVTPCFGARLVQEGNQLHYLADRAGIRGQFSDADAYHLDQA
  29 ----------PDDNHDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  30 -SDTLPGTTHPD-NNNRPWWGLPCTVMPCFGARLVQEGNRLHYLADRAGIRGRFSDADSYHLDQA
  31 --------GTKPENPACQQWGLKCAITPCFGARLVQEGNRLHFLSDRAGFSGAFAVDVAMRLDQA
  32 --------------------------TPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  33 --------------------------TPCFGARLVQEGNRLHYLADRAGIRGRFRDADAYPLDQA
  34 ----------------TPAWGLKRNVTPQLGARLVQEGDQLHFLADRADISGKFSDAQVRDLNNA
  35 --------------------------TPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  36 --------------------------TPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  37 ----------------TPAWGLKRNVTPQFGARLVQEGDRLHFLADRADINGTFSEVQVRDLDNA
  38 ------------------TWGLQRDITPRLGARLVQEGNQLHYLADRASITGKFSDAECPKLDVV
  39 --------------------------TPCFGARLVQEGNRLHYLADRAGIRGRFRDADAYPLDQA
  40 --------------------------TPCFGVCLVQEGNRLHYLADRAGIRGLFSDADAYHLDQA
  41 ----------------TQTWGLKRDITPCFGARLVQEGHRLHFLADRAGFNVSFSEMQARDLEEA
  42 ------------DKVMQQEWGLPCTVTPRFTARLVQERHNLHYLADRAAITGKFSSPDLLHIDQA
  43 -----HTTPPHEDDIPSPVWGLQRDITPRLGARLVQQGNHLHFLSDRAGFIGTFSPDTVQALEVT
  44 --------------SDTPEWGLKCAITPRFGARLVQEGNRLHYLADRASVVGTFSKTEARHLEHV
  45 -----------------PTRGLQREITLRLGARLVQEGNRLHYLADRASITGKFSDIECRKLDET
  46 -------------------WGLPRKVSPRFGARLILRGLHLDYLHDRASFVGEFPPAIKQQFVEA
  47 -------------------WGLPRKVSPRFGARLILRGLYLDYLHDRASFVGEFPPAIKQQFVEA
  48 -------------------WGLPRKVSPRFGARLILRGLHLDYLHDRASFVGEFPPAIKQQFVEA
  49 ----------------SPTWGLKRDITPRLGARLVQEGTHLHFLSDRANIVGTFSPQAAQALDVA
  50 -------------------WGLPRKVSPRFGARLILRGLHLDYLHDRASFVGEFPPAIKQQFVEA
  51 ------------------AWGLKRDITPRLGARLVQEGTHLHFLADRAGFVGTFAPDILQTLDTV
  52 -------------------WGLPRKVSPRFGARLILRGLHLDYLNDRASFVGEFPPAIKQQFIEA
  53 -------------KDSTQTWGLKRDITPCFGARLVQEGHRLHFLADRAGFTGSFSEVQTLQLDEA
  54 ----------------SPTWGLQCDITPRLGARLVQEGTHLHFLSDRAHIVGTFSLEATQALDAA
  55 -----------------PTWGLKRDITPRLGARLVQEGTHLHFLSDRANIVGTFSLEATQSLDTV
  56 ----------------TQTWGLKRDITPCFGARLVQEGHRLHFLADRAGFTGSFSEVQTLQLDEA
  57 ----------------SPTWGLQCDITPRLGARLVQEGTHLHFLSDRAHIVGTFSLEATQALDAA
  58 -----------------------------------QEGNRLHYLADRAGIRGRFRDADAYPLDQA
  59 -----------------------------------QEGNRLHYLADRAGIRGRFSDADAYHLDQA
  60 --------------NDNPEWGLRYDLMPRFTARLVQEGNRLHYLADRAGITGTFNEEECHQLNAA
  61 -----------------------------------QEGNRLYYLADRAGIRGRFSDADAYHLDQA
  62 -----------------------------------------HYLADRAGIRGLFSDADAYHLDQA
  63 MSDTLHETNYPDDNNDRPWWGLPCTVTPCFGARLVQEGNQLHYLADRAGIRGQFSDADAYHL---
  64 -----------------------------------------------------------------
  65 -----------------------------------------------------------------


         70        80        90       100       110       120  
         |         |         |         |         |         |  
   1 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCDYVYLAVYPTPEMKN
   2 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYMAVYPTPETK-
   3 FPLLMKQLELMLTSGELSPRHQHTVTLYAKGLTCEADTLGSCGYVYMAVYPTPETK-
   4 FPLLMKQLELMLTSGELSPRYQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPEMK-
   5 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCDADTLGSCGYVYLAVYPTPETK-
   6 FPLLMKQLELMLTSGELNPRHQHTVTLYAKRLTCEADTLGSCGYVYMAVYPTPETK-
   7 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPETK-
   8 FPLLMKQLELMLTGGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPA---
   9 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCGYVYLAVYPTPEMK-
  10 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCDYVYLAVYPTPEMK-
  11 FPLLMKQLELMLTSGELSPRYQHTVTLYAKGLTCEADTLGSCDYVYLAVYPTPEMK-
  12 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCGYVYLAVYPTPEMK-
  13 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLGSGGYVYLAVYPTPETK-
  14 FPLLMKQLELMLTSGELNPRHQHTITLYAKGLTCEADTLGSCGYVYLAVYPTPA---
  15 FPLLMKQLELMLTSGELNPRYQHTVTLNAKGLTCEADTLGSCGYVYLAVYPTP----
  16 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCDADTLGSCGYVYLAVYPATE---
  17 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGCVYLAVYPTPETK-
  18 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPA---
  19 FPLLMKQLELMLTGGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPA---
  20 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPA---
  21 FPLLMKQLELMLTSGELSPRYQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPEMK-
  22 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPET--
  23 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPET--
  24 FPLLMKQLELMLTSGELNPRYQQSVTLYAKGLTCEADTLGSCGYVYLAVYPTP----
  25 FPLLMKQLELMLTSGELNPRHQHTVTLYARGLTCEADTLGSCGYVYMAVYPT-----
  26 FPLLMKQLELMLTSGELSPRYQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPEMK-
  27 FPLLMKQLELMLTIGELNPRHQHTVTLYARGLTCEADTLGSCGYVYMAVYPT-----
  28 FPLLMKQLELMLTIGELNPRHQHTVTLYARGLTCEADTLGSCGYVYMAVYPT-----
  29 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLGSGGYVYLAVYPTPETK-
  30 FPLLMKQLELMLTSGELSPRYQHTVTLYAKGLTCEADTFGSCGYVYLAVYPTPET--
  31 FPLMMKQLELMLTSGELNPRHPHCVTLYHNGLTCEADTLGSCGYVYIAIYPEQT---
  32 FPLLMKQLELMLTGGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPETK-
  33 FPLLMKQLKLMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPETK-
  34 FPQFINHLELMLLSGELNPRYQHCVTLYHKGLTCEADSLGSHGYVYLAIYPTP----
  35 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLGSGGYVYLAVYPTPETK-
  36 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCGYVYLAVYPTPEMK-
  37 FPQFINYLELMLLSGELNPRHQHCVTLYRNGLTCEADSLGSHGYVYLAIYPTP----
  38 FPHFISQIESMLTTGELNPRHAQCVTLYHNGFTCEADTLGSCGYVYIAVYPT-----
  39 FPLLMKQLKLMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTSETK-
  40 FPLLMKQLELMLTSGELSPRYQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPEMK-
  41 FPHFVAHMELMLLSGELNPWCAHCVTLYRNGLTCEADTLGSYGYVYIAIYPSN----
  42 FPVLMKHLELKLADGELSPCQQRTVTLYAKGLTCEADTLGSCGYVYIAIYPT-----
  43 FSALLTKLEAQLQSGALDPRRQHCVTVQHAGFTCEADTLGSFGHVYIAVYQT-----
  44 FPELIKQLEHKLRASELNPRQQKCVTLHCNEWTCEADTLGSVGYVYIAIYPS-----
  45 FPHFILQMESMLTTGELSPHHAHCVTLYHNDLTCEADTLGSCGYVYIAIYPT-----
  46 FPAMVKQLERLVATGEIDATEQHCVSIEHAGFTCEADTLGSHGYLYLAIYQTEAKP-
  47 FPAMVKQLERLVATGEIDTTEQHCVSIEHAGFTCEADTLGSHGYLYIAIYQTETKP-
  48 FPAIVKQLERLVAEGEIDATKQHCVSIEHAGFTCEADTLGSYGYLYIAIYQTETKP-
  49 FPALITKLESQMLSGALDPRRQQGITVRHGGFVCDADTLGSHGYVYIAVY-------
  50 FPAMVKQLERLVATGEIDTTEQHCVSIEHAGFTCEADTLGSHGYLYIAIYQTKA---
  51 FPVLIQHLEARLRSGELDQRHQHCVTVQHAGFTCDADTLGSHGYLYIAVYQ------
  52 FPAMVKQLERLVATGEIDATEQHCVTIEHVGFTCEADTLGSHGYLYIAIYQTEA---
  53 FPHFVAHLELMLLSCELNPRYAHCVTLYRNGLTGEADTLGSHGYVYIAILNRHG---
  54 FPALITKLESQLLSGALDPRRQQGITVRHGEFVCEADTLGSHGYLYIAVYQ------
  55 FPALITKLESQLLSGQLDPRRQQCLTVRLGGFVCDADTLGSHGYVYIAVYQ------
  56 FPHFVAHLELMLLSCELNPRYAHCVTLYRNGLTGEADTLGSHGYVYIAILNRHG---
  57 FPALITKLESQLLSGVLDPRRQQGITVRHGEFVCEADTLGSHGYLYIAVYQ------
  58 FPLLMKQLKLMLTSGELNPRHQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTPETK-
  59 FPLLMKQLELMLTSGELNPRYQHTVTLNAKGLTCEADTLGSCGYVYLAVYPTP----
  60 FPHFIKQMELMLLSGELNSRDAHRVTLYHNELTCEADTLGSCGYVYIAIYPT-----
  61 FPLLMKQLELMLTSGELNPRYQHTVTLYAKGLTCEADTLGSCGYVYLAVYPTP----
  62 FPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCGYVYLAVYPTPEMK-
  63 ---------------------------------------------------------
  64 -----------LTSGELNPRHQHTVTLYAKGLTCKADTLGSRGYVYMAVYPTPETK-
  65 -----KQLELMLTSGELNPRHQHTVTLYARGLTCEADTLGSCGYVYMAVYPT-----