Jnet secondary structure prediction

QUERY      : MSAVTESVLESIISPVTMSEFLEEYWPVKPLVARGEVERFTSIPGFEKVRTLENVLAIYNNPVMVVGDAVIEESEGITDRFLVSPAEALEWYEKGAALEFDFTDLFIPQVRRWIEKLKAELRLPAGTSSKAIVYAAKNGGGFKAHFDAYTNLIFQIQGEKTWKLAKNENVSNPMQHYDLSEAPYYPDDLQSYWKGDPPKEDLPDAEIVNLTPGTMLYLPRGLWHSTKSDQATLALNITFGQPAWLDLMLAALRKKLISDNRFRELAVNHQSLHESSKSELNGYLESLIQTLSENAETLTPEQIFQSQDSDFDPYQSTQLVFRQLLTSYKF : QUERY 
Q8CFC1     : ---SPSSFFESLISPIKVETFFKEFWEQKPLLIQRDDPYYQSLFSLSDLRSLCSQGLYYGRDVNVCGKKKVLNKDGKAQFLQLRK----DFDQKRATIQFHQPQRFKDELWRIQEKLECYFGSLVGS----NVYMTPAGSGLPPHYDDVEVFILQLEGRKRWRLYSPT----------VPLAREYSVEPEDRI-GTPTHDFL-------LKPGDLLYFPRGTIHQAETPSGAHSIHLTYQNNSWGDYLLDSISGLVLRTGMPRRMLMNVETPADVTR-KLSGFLRTLADQLEGRKELLSSD----------------------------- : Q8CFC1
Q9W4L2     : -------VLQWILFPVQTKVFFKDFWEHTACLVQRSNPYFQSMISFK---MLDEILIRHHLDFTVNVDVTTYKRETLNPEGRALPPAVWGFYSDGCSIRLLNPSTYLIRLRQVCTVLQEFFHCKVGAN---LYLTPPNSQGFAPHYDDIEAFVIQVEGRKRWLLYEP---------------PKKADQLARISSGNYDQEQLGKPIIDVLSAGDVLYFPRGAVHQAITEEQQHSLHITYQQQAYANLLETVLKKAVDRSVALRRGLPLHQVLGNAYKGNDCGSRKQLVENVQK----LVTNYLMPSED-DID------------------ : Q9W4L2
Q9I0K8     : -----------LLGGLTAAEFLRDYWQRKPLLVRQAIPDFESPLSADELAGLSLEESVESRIVLEHGKTPWEMRRG--------PFQEEDYQEQDWTLLVQAVDQFVPEVAQLLEQFRF---LPSWRIDDVMISYAAPGGGVGPHFDNYDVFLLQGHGRRRWKVGQMCSSDSPLREHADLRI----------------LADFEQSDEWVLEPGDMLYLPPRLAHYGIAEDECMTYSIGFRAPSAAEVLTDFLGQFLSDEERYTDAGLQPDDPHQIQRDAL-ERLQGLIQEHMSDERLLLT------------------------------ : Q9I0K8
O01658     : -SVVTSSAFGFMISPCDVQTFFDKFYQSNVLVVRRQPTYFGNLFSTARLGELLEKNHLYGRNINIAQYKN-GVRTTLNGQGRAYPQIVKQHLHNMCSVQLVNPQTYDDRIWYLCEVIQEQFGCFVG----ANTYLTPAGSGFAPHWDEIDAFLLQVEGRKYWRVWAPESAEEELPLESSD--NFTEDDMKGR---EPVFEGW-------IEKGDMIYIPRGYIHQARTDSKVHSLHVTVRQWSFANLMEKVVPEAVLTDTRLRRGLPTVIDLDYSQEDHFVEKFKMVVDRHMSMLRNLVADQLLES------------------------ : O01658
Q8IUF6     : ---SPSSLFESLISPIKTETFFKEFWEQKPLLIQRDDPYYGSLFKLTDLESLCSRGMYYGRDVNVCGKKKVLNKDGKAHFLQLRK----DFDQKRATIQFHQPQRFKDELWRIQEKLECYFGSLVGS----NVYITPAGSGLPPHYDDVEVFILQLEGEKHWRLY----------HPTVPLAREYSVEAEERI-GRPAHEFM-------LKPGDLLYFPRGTIHQADTPHSTHVTISTYQNNDAGARM---------------------------------------------------------------------------------- : Q8IUF6
Q88FR6     : -----------LLGGISAREFMRDYWQKKPLLVRQAFPDFISPIDPDELAGLALEDEVESRIVLEHGAHPWELRRGPEDTFAELP-------EKDWTLLVQAVDQFVPEVAELLENFRF---LPSWRIDDVMISFAAPGGSVGPHFDNYDVFLLQGHGQRNWKIGQMCSSDSPLEHADLRILAEFE-----------------QSGEWTLEPGDMLYLPPRLAHYGVAVDDCLTYSVGFRAPSAAEVLFTDFLGQFLPDEE--------------------------------------------------------------------- : Q88FR6
Q9H6W3     : -------LFEWLIAPMPPDHFYRRLWEREAVLVRRQDTYYQGLFSTADLSMLRNEEVQFGQHLDAARYIN-GRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNV---YLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRA---PTEELALTSSPNFSQD----DLGEPVLQT-------VLEPGDLLYFPRGFIHQAECQDGVHSLHLTYQRNTWGDFLEAAVQAAMEENVEFRRGLPRHSDSKDPRRTAFMEKVRVLVARL--------------------------------------- : Q9H6W3
Q8Y096     : -----------LLGGLSPRDFMRTHWQKKPLLIRQAL-------SPEDMRAL-------HFPLSPDALIKLARREDVESRLIAQTRGRWTFNHRNWTLLVQGVNLVEPAVDALMQRFRF---IPDARLDDVMISFATDGGGVGPHFDSYDVFLLQAHGRRRWRISSQ---------NDLTLVPDLPLKILANFTPE---------EEFILEPGDMLYLPPHYAHDGVAEGDCMTYSVGFRSPSYRELFLGFLSQTLEDNPDFEGRYTDPEQKPVERPGELTAMVRALAQKL--------------------------------------- : Q8Y096
Q87DC4     : --------------GMPEEYFLHHYWQKRPLLIRNAFPDF-------------------HSPVTPEDLAGLACEEGVLCRLVRHNRNTDTWVRHGPFQEEEFPTLLVQDVDKWDQDVRALLELPRWRIDDIMISFAATHGSVGAHVDQYDVFLLQGQGHRHWHIDASVAMGRKAP----------PLDFRNDVDIKLLRQFTPTH-EWVLAPGDMLYLPPLVPHHGVADDPCLTYSLGMRAPSSAELISDWLDTLISEADEAVRYLTRPEDPYEI------------------------------------------------------- : Q87DC4
Q87ZR3     : ------------LGGISARVFLRDYWQKKPLLIRQALPDFQSPIDADELAGLALEEEVESRLVIENGERPWELRRGPEDEFSKLP-------ERDWTLLVQAVDQFVPEVSELLENFRF---LPSWRIDDVMISYAAPGGGVGPHFDNYDVFLLQGHGKRHWQIGQMCDAESPLQHADLRILAEFE-----------------KTEEWTLEPGDMLYLPPRLAHCGVAVDDCLTYSVGFRAPGAAEVLTDFLSQFIPDEERYTDADAQPSDPHQIQHDALD-RLKALLAEHMSDERLLLT------------------------------ : Q87ZR3
Q8PM95     : --------------GMPVERFLRNYWHKHPLLIRNAFADFASPLQPEDLAGL-------------------ACEDGVLARLISHDRATDGWDRTGPFQETDFPTLLVQDVDKWDADVRALLELPRWRIDDIMISFAATGGSVGAHVDHYDVFLLQGQGHRRWQID-----ARTVQGRKATPLAFRDDVELKLLREFKPTHD------WVLGPGDMLYLPPLIPHHGVAEDACLTFSIGTRAPSSAELIGDYLDTLIADADEAVRYHEDLKVPADPYEIDVTAMNRVVA------------------------------------------ : Q8PM95
Q9CP87     : ---------------ITPEIFLRDYWQKKPLLIRNGLPEIVGMFEPDDIIELAQQEDVTSRLIKQFSEDNWQLARSPAKDFKNLPAQ--------WSVLVQNLEQWSPEL----GQLWHAFGFPQWQRDDIMVSYAPAGGSVGRHYDEYDVFLVQGYGHRRWQLGKWCDPSTEFK-------ANQPIRIFDDMGELILDE--------VMAPGDILYVPSRLSHYGVAQDDCLTFSFGLRYPNVADLFDNALPEIDLTENIPLRLSPATQAT---------------------------------------------------------- : Q9CP87
Q7T3G6     : -SGSPQEFFQSLIRPLDLQEFFQRFWERQPLVLHRSDAALAGYYG--SLFPLSGLRRLCARGLQYGTDINTCRCVRGQKRLLNRAGAVDDFLEKKATIQFHQPQRFQDELWRIQERLECFFGCLVGS----NVYITPAGQGLPPHYDDVEVLILQLEGQKHWRLYEPT----------VPLAREYSLEPEGRIG--------APTHDFILQAGDLLYFPRGTIHQADTPAGAHSTHLTYQNRSWGDLLLDLMPGCVFDRTGLPRGLLTTPSISPAVSHQLSVFLRRLADVVDQQGQSLRSSSM--------------------------- : Q7T3G6
Q9LT40     : -------------SGLSLEGFLRDYYPGTPVVITNSMAHWPA---RTKWNHLDYLNAVAGRTVPVEVGKNYLCSDWKQELVTFSKFLERMRTNKSPTYLAQHP--LFDQINELRDDIPDYCFVGGGELQSLNAWFGPAGTVTPLHHDPHHNILAQVVGKKYIRLYPSFLQDELYPYSETMLCNSSQVDLDNIDETEFPKAMELEFMDCILEEGEMLYIPPKWWHYVRSLTMSLSVSFWWSN----------------------------------------------------------------------------------------- : Q9LT40
Q8EDV7     : ---------------LDIAQFLKDYWQQKPVVIKGAFPHFEDPISADELAGL-------------------ACEEEITSRIVVTQKDNWEVIQ-GPFEDYDHWQLLVQAVNHWYPDLVEAFRFPDWRFDDLMVSFATPNGGVGPHIDNYDVFIIQGEGQRRWTVG-----------------DNTPQQCRGGNPNSPLVEDFDPIIDMVLEKGDMLYIPPGFPHCGETLTLALSYSIGYRAPSQQELV-SEVADYLLDKNLGQQRFTSASEPTNSQDHQLGIMLSQLAQ----------------------------------------- : Q8EDV7
YCFD_HAEIN : ---------------ITPEIFLRDYWQKKPLVIRNGLPEIVGQFEPQDIIELAQNEDVTARLV------KTFSDDDWKVFF--SPLSEKDFQKEKWSVLVQNLEQWSPEL----GQLWNKFGFPQWQRDDIMVSYAPKGGSVGKHYDEYDVFLVQGYGHRRWQVGKWCDASTEFKPNQSIRI----------------FDDMGELIDEVMNPGDILYIPARMAHYGVAEDDCLTFSFGLRYPNLSNLI-DGISKQDPDLNLSEFDLPLRLSQSEQRTGKL------ADENIQAMKQLLL-DKLAHSEAFD-------------------- : YCFD_HAEIN
Q8D0Q3     : ---------------LDWPDFLQRYWQKRPVILKRGFKNFIDPLSPDELAGLDSRLVSHEDGRWHVSHGPFESFDHLGENNWSLLVQAVDWHEPAAALMRPFRPL------------------SDWRMDDLMISFSVPGGGVGPHFDQYDVFIIQGSGRRRWRVGEKTEMKQHCPHPDLLQVG--------------PFDAIIDEE---MEPGDILYIPPGFPHEGYSLENALNYSVGFRAPSGRELVSGFADYVLARELGSYRYLQLREHPAEVLPSEVDKLRTMMLDLVQQ------------------------------------- : Q8D0Q3
YCFD_ECOLI : ------------------PDFLERHWQKRPVVLKRGFNNFIDPISPDELAGLDSRLVSHQDGKWQVSHGPFESYDHLGETNWSLLVQAVNWHEPTAALMRPFR------------------ELPDWRIDDLMISFSVPGGGVGPHLDQYDVFIIQGTGRRRWRVGEKLQMKQHCPHPDLLQVD--------------PFEAIIDEE---LEPGDILYIPPGFPHEGYALENAMNYSVGFRAPNTRELISG-FADYVLQRELGGNYYSDPDVPADVLPQEMDKLREMMLELINQ------------------------------------- : YCFD_ECOLI
Q17765     : -----ENSFEKLISAVQNNT---------PLIVRRHSSNMPAIEKWSFPFLLQEL---HSRTFPVESDENWSQKMTFKEFIRNSENERLYLAQHR---LFDQVPHLKRDV--IIPDV-CFGESSNPENVDMNMWIGPQDTVSPLHTDPRKNMFVQVHGTKLFRMVAPESSESVYPF-DGILSNTSQVDVENPDLKIFPNFEQVEVLDAVINPGDAIFIPEKWWHFVRSTSPSISISFWF------------------------------------------------------------------------------------------- : Q17765
Q9LZU2     : --------FDSQPSPVK---FLRNYSQSKPCVISKAITHWPALKLWSDPAYLTGALSDLHLTPNGCADAVTGDSDASAHVEKVLFPEALKVVQSSCYLQQQFRTEYSTVALDCDGDIEWATEAFGCSPEAVNLWIGTDDSVTSFHKDHYENLYAVVSGEKHFLLLPPTDVHRLYIEEPVRHVPWSSVDPASERLKFPLFFDGPKPFHCTVKAGEVLYLPSMWFHHVSQTPGTIAVNYWY------------------------------------------------------------------------------------------- : Q9LZU2
Q91W88     : --------------PPSPLCFYRD-WPNRPCIIRNALQHWPALQKWS----LSYLRATVGSTEVSVAVTPDGYADAVGDRFISHVLDVLERAQHPGVLYVQKPTELPQLLSDIESHVPWASESLGKMPDAVNFWLGDASAVTSLHKDHYENLYCVVSGEKHFLLHPPSDRPRVVDEEAMEKVPWIPLDPLAPDLTQYPSYSQAQALHCTVRAGEMLYLPALWFHHVQQSHGCIAVNFWY------------------------------------------------------------------------------------------- : Q91W88
Q8TB10     : --------------PPTPLHFYRD-WPNRPCIIRNALQHWPALQKWSLPYFRATVGSTESVAVTPDGYADFMMPAERRLPLSFVLDVLEGRAQHPGVLYVQKPSELPQLLPDLESHVPWASEALGKMPDAVNFWLGEAAAVTSLHKDHYENLYCVVSGEKHFLFHPPSDRPFPYEEEAMEKVPWIPLDPLAPDLARYPSYSQAQALRCTVRAGEMLYLPALWFHHVQQSQGCIAVNFWY------------------------------------------------------------------------------------------- : Q8TB10
Q9JY19     : -------------FGISPKTFRQTYLYQKPKLFKGAVRNLES-ASWKDINEIYQR-ADPTAPLFHLRKKGVESFDDLGKRYRFIKSVIYEHMKNGASLVYNHINN-EPFSDHIARQVARFAG--AHTIVSGYLAFGSDES-YKNHWDPRDVYAIQLFGKKRWQLTAP---DFPM--------PLYMQQTKDTDISIPEHIDM----DIILEAGDVLYIPRGWWHRPIPL-GCETFHFTFPPNGY-NYLE-WLMKKFPTIESLRHSFSDWEQ----------------------------------------------------------- : Q9JY19
Q8PIA2     : ----------------------------EPVVLRGVARNWQAGLRSADEAMALLRAHDTGRPLQYSGSRPFYRDDCSALNFQVQRGSVSTLLDAIAAHRDDQPPTYSLPVDANLPGLRAHNDLDVAANVQPSIWIG-NRVIASCHYDALDNLACCAVGQRRFTLFPPEQVANLYPGPLDPTPGGQVVSMVDPDLQRFPRFALPHARSVVLEPGDALFIPSMWWHHVQSLHPNVLINYWW------------------------------------------------------------------------------------------- : Q8PIA2
Q9H970     : -------AFVSEPGAFSYADFVRGFLPNLPCVFSSAFTQWGSRRRWVTPAGRDHLLRTYGDVVVPVANCGVQEYNSWKEYIQAYSSPRGCLYLKDWHLCRDFPDVFTLPVSDWLNEFWDALDVDDYRF----VYAGPAGSWSPFHADIFRSFSVNVCGRKKWLLFPP-GQEEALRDRHGNLPYDVTSPALCDTHLHPRNQLAGPPLEITQEAGEMVFVPSGWHHQVHNLDDTISINHNWVN----------------------------------------------------------------------------------------- : Q9H970
Q8P6Y9     : ----------------------------QPVVLRGVARDWQAGQRGDAEAMAVLRRFDRAQPLQYSAGRPFYTDDVTDLNFEVRRGSLGSVLEAIEAHRNDQPPTYSLPVDDYLPGLRAGNDLDSGSNVQPSIWIG-NRVVASCHYDVPNNLACCAVGQRRFTLFPPEQIANLYPGPLEPTPGGQVVDLAAPDLQRYPRQALPHARTAVLQPGNAVFIPSMWWHHVMALQPNVLVNYWWGS----------------------------------------------------------------------------------------- : Q8P6Y9
Q9FG15     : ------------VRGISVEDFITKFEENKPVLLEGCLDGWPAIEKWSR----DYLTKVVGDVEFAVG--PVEMK--LEKYFRYSDGAR----EERPLYLFD--PKFAEKVPVLDSEYEDLFGVLGNRPDYRWIIIGPAGSGSSFHIDPNSTSAWVITGSKKWVLFPPDVVPPGVPSPDGAEVACPVSIIEWFMNFYDDTKDWEKPIECICKAGEVMFVPNGWWHLVINLEESIAITQNYAS----------------------------------------------------------------------------------------- : Q9FG15
Q7ZX37     : ---------------LTTEEFIERY-EKKPVVIINATAGWPANEKWT----LERLKRKYRNQKFKCGEDNDGYSVKMKKYYIDYMEGTRD---DSPLYIFDSSYGEHPKRKKILEDYEDLFQFTGRRPPYRWFVMGPPRSGTGIHIDPAWNSL--VHGHKRWCLF-PTNTPRELIKVTRDEGGNQQDEAITWFNVVYPRTQLPKPLEILQKPGETVFVPGGWWHVVLNFDTAIAVTQNFASCS--------------------------------------------------------------------------------------- : Q7ZX37
Q9VU77     : -------------------EFCREFYSKQPVVIRKAL-NWPAIGKWT-PKYLIEALGDRSVDVTPNGYAPLETKMKLSEVVRRLDDAVHYIQKQNSNLSVDLPEL---AADLRVSDLDFAQQSFNKPPDAVNFWLGDERAVTSMHKDPYENVYCVISGHKDFVLIPPSDSGQFYIEPLRDETEWVSVDPLSPDLAKYPEYARAKPLKVRVHAGDILYLPNYWFHHVSQSHKCIAVNFWY------------------------------------------------------------------------------------------- : Q9VU77
Q8JI08     : ---------------LSPEEFIQRF-EKKPVVLLNVEDSWPAREKWT----LERLKRKYRNQKFKCGEDNYLESTHDDSPLYIFDSSFGEHAKRRKLLEDYQVPLF------FRDDLFQFAGEKR-RPPYRWFVMGPARSGTGIHIDPAWNALVQ--GHKRWCLF-PTHTPRELIKVTRDEGGNQQDEAITWFNVIYPRTDEFRPLEILQRPGETVFVPGGWWHVVLNLDTTIAVTQNFA--STTNFPIVWHKTV--------------------------------------------------------------------------- : Q8JI08
Q9GYI4     : ---------------LTVEEFRRDFRPRIPVIITGLTDNWAAKDKWTVEREDDNGNSVRMKMKYYHDYMLNNKDDSPLYIFDSSFAERRK--TKKLSEDYSVPKFFEDDLFHYADDKK--------RPPHRWFVMGPARSGTAIHIDPAWNSLLQ--GHKRWVLIPPRDLVKPMAHEKGKHPDWFQTVYKRVRSPSWPKEYAP--IECRQGPGETMFVPSGWWHVVINEEYTIAVTHNY------------------------------------------------------------------------------------------- : Q9GYI4
Q9VD28     : -SQVPESEF--------IERFERPY---KPVVIRGCTDGWLALEKWT----LARLAKKYRNQKFKCGEDNYMQSTRDDSPLYIFDSSFGEHHRRR-KLLDDYPKYFRDDLFQYCGE--------NRRPPYRWFVMGPARSGTGIHIDPAWNTLIR--GHKRWCLF-PTQTPKELLKVTSAMGGKQRDEAITWFSTIYPRTQLPRPIEVLQGAGETVFVPGGWWHVVLNMDDTIAITQNFS--SQTNFPCVWHKTV--------------------------------------------------------------------------- : Q9VD28
Q9VJ97     : -------------SGLDYNDFFWRYMHKNPVIIANVSNDWQSSPESRDLNSASSINFDYLKTKISDGPVPVANCNHTKLELNFHPASGDNLYLKDWHLAAQMPNFYKVPASDWLNEQLIQQGKDDYRF----VYMGPKNSWTSYHADVFGSFSWNIVGLKKWLIMPPGEE---------LKLNDRLGNLPFSIDEKMLDEHNVRYYTINQRANEAVFVPSGWFHQVWNLTDTISVNHNW------------------------------------------------------------------------------------------- : Q9VJ97
Q7T0U8     : -----------------------------------DVEYYVGPEKEIDVI-----------DVTRQADLKMKLKDFVKKREKVLNLISLEFSETRLSNLVETPKI-VRKLS-WVENLWPEQSVFERPNVQKYCLMGVKDSYTDFHIDGTSVWYHVLKGEKIFYLIQPTKT-NLALFECWSSSSNQNEMFFG--------DQVDKCYRCPVKQGQTLFIPTGWIHAVLTPVDCLAFGGNFKRLSTADLLLDTFRGLRENRRQPASYLL-HGAKALNTTFRAWTKKEALMDHEEEIPETIITSQLIKDLDREI------------------- : Q7T0U8
O97101     : ----------------TSPEIVEDYIIKRPFVLTGTTQGWSNMFTLDFLSERYSEMELINSPRNNETHTGWRMKDFI-SYLQVSPEERNPKHLYGKDIA--CPREWQEYLSHKLQPQYSYSHLPDYQPETLLVYIGSNGTYTPGHIDDQDAFAW-------WFIVPTEYKDEALKFWGDKGGDVYNES--RFIRPIDLLGAPFPIYVFKQRPGDFIFVPPDSVHQVVNCGPGISTKVAWNSISLKSLPISYFSSLPHTRRMAKPELFRIKAIAYYTLRKIMGDVE--------------------------------------------- : O97101
Q9GYI0     : -------------------------------------------------------------------------RDTKNRPL-LYNFLSLEFSDNNEMKEIAKPPRFVQEVNRLWPDVEEYLPEDQRPKVEQFCLAGMAGSYTDFHVDGSSVYYHILKGEKIFYIAAPTEQNFA-AYQAHETSPDTTTWFGDIANGAVKR--------VVIKEGQTLLIPAGWIHAVLTPVDSLVFGGNFL--HLGNLEMQYHLENAIRKEEEKFYFPNFELLHNVLLEKITEANQEGSDMREQEKNIWTASQIMKAE----------------------- : Q9GYI0

           : 1---------11--------21--------31--------41--------51--------61--------71--------81--------91--------101-------111-------121-------131-------141-------151-------161-------171-------181-------191-------201-------211-------221-------231-------241-------251-------261-------271-------281-------291-------301-------311-------321------- :
OrigSeq    : MSAVTESVLESIISPVTMSEFLEEYWPVKPLVARGEVERFTSIPGFEKVRTLENVLAIYNNPVMVVGDAVIEESEGITDRFLVSPAEALEWYEKGAALEFDFTDLFIPQVRRWIEKLKAELRLPAGTSSKAIVYAAKNGGGFKAHFDAYTNLIFQIQGEKTWKLAKNENVSNPMQHYDLSEAPYYPDDLQSYWKGDPPKEDLPDAEIVNLTPGTMLYLPRGLWHSTKSDQATLALNITFGQPAWLDLMLAALRKKLISDNRFRELAVNHQSLHESSKSELNGYLESLIQTLSENAETLTPEQIFQSQDSDFDPYQSTQLVFRQLLTSYKF : OrigSeq

jalign     : ------------------------------EEEE---------------HHHHHHHHH-------------------------------------------------------------------------EEEE----------------EEEE-----EEEE--------------------------------------------------------------------EEEEE--------------------------------------------------HH----------------------------------------- : jalign
jfreq      : --------EEE------HHHHHHHH-----EEEEE-----------HHHHHHHHHHHH----EEE---------------EEE----HHHH------------------HHHHHHHHHHHH---------EEEEE-------------HHHHEEHH----EEEE------------------------------------------HEEH-----EE-----EEEEE----EEEEEEE------HHHHHHHHHH----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHH----- : jfreq
jhmm       : -----HHHHHH-------HHHHHHH----EEEEE-------------HHHHHHHHHHH-------------EEE-------EEE---H----------E------HHHHHHHHHH-HHHHH---------EEEEE----------E----EEEEEEE--EEEEEEE--------------------------------------HHHEHH----EEEE-----EEEE-----EEEEE------HHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHH-------HHHHHH----------HHHHHHHHHH----- : jhmm
jnet       : ------HHHHHH------HHHHHHH-----EEEEE-----------HHHHHHHHHHH------EE------EE-------EEEE-HHHH------------------HHHHHHHHHHHHHH---------EEEEE---------------EEEEEEE--EEEEEE-----------------------------------------EEEE----EEE-----EEEEE----EEEEEEE------HHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHH--HHHHHHHHH-----------HHHHHHHHHH----- : jnet
jpssm      : -----HHHHHHH------HHHHHHH-----EEEE------------HHHHHHHH-----------------EEE------EEEHHHHH-------------------HHHHHHHHHHHHHH--------EEEEEE----------------EEEEEE--EEEEE------------------------------------------EEEE----EEE-----EEEEE-----EEEEEE--------HHHHHHHHHHHH--HHHH---------------HHHHHHHHHHHH-------------------------HHHHHHHHH----- : jpssm

jpred      : ------HHHHH-------HHHHHHH-----EEEE------------HHHHHHHHHHHH-------------EE-------EEEE-----------------------HHHHHHHHHHHHHH---------EEEEE---------------EEEEEEE--EEEEE------------------------------------------EEEE----EEE-----EEEEE-----EEEEEE------HHHHHHHHHHH----------------------HHHHHHHHHHHHHHH-------HHHH------------HHHHHHHHHH----- : jpred

Lupas 14   : ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ : Lupas 14
Lupas 21   : ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ : Lupas 21
Lupas 28   : ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ : Lupas 28

Jnet_25    : BB-B---BB-BBBB-B-B--BB--BB---BBBB--BB--B--BB-B--B--BBBBBBBB---BB----B-BB----B---B-BB---B--BB---BBBBB-BB--B---B--BB--B--BB-B-----BBBBBBBBB-B-BBBBBBB-BBBBBBBBBBBBBBBBB-B-----BB-------B--BBB-B--B----BB---B--BB-BBB-BBBBBBBB--BBBBBBB---BBBBBBBBBBBBBBBBBB-BB--BBB---BB--BBB-B--B---B---B--BB--BB--B------BBB--BB------B--B--B-BBB--BB--B-B : Jnet_25
Jnet_5     : -------BB------B----BB-------B-BB---------------B--B----------------------------B------------------------B---B------B-------------BBBBBB----BB--B-----BBBBBB-B---B-B---------------------------------------------B----BBBBB--BBB-B-B----BBBBBBB-------BBB--B---------B---B-------------B---B--BB-------------------------------BB--B------ : Jnet_5
Jnet_0     : ------------------------------------------------------------------------------------------------------------------------------------B-B---------------BBBB-------------------------------------------------------------BB----------------BB----------------------------------------------------------------------------------------------- : Jnet_0
Jnet Rel   : 767701245550279981799987279974026309878888677158999984764068881212564631122275522430012300179999610799877413688999879999556899987368871688984444345863488987221188962599887798889999888765678899988752123568532662389548818986477751898189998515888256899999987413501124488888898877136899999999999713202456765038999888652399999999717887 : Jnet Rel


Notes
Key:
Colour code for alignment:
Blue            - Complete identity at a position
Shades of red   - The more red a position is, the higher the level of
                  conservation of chemical properties of the amino acids
jalign          - Jnet alignment prediction
jfreq           - Jnet PSIBLAST frequency profile prediction
jhmm            - Jnet hmm profile prediction
jnet            - Jnet prediction
jpssm           - Jnet PSIBLAST pssm profile prediction
jpred           - Consensus prediction over all methods

MCoil           - MultiCoil prediction (and dimer and trimer predictions)
Lupas           - Lupas Coil prediction (window size of 14, 21 and 28)

Note on coiled coil predictions  - = less than 50% probability
                                 c = between 50% and 90% probability
                                 C = greater than 90% probability

Jnet_25         - Jnet prediction of burial, less than 25% solvent accesibility
Jnet_5          - Jnet prediction of burial, less than 5% exposure
Jnet_0          - Jnet prediction of burial, 0% exposure
Jnet Rel        - Jnet prediction of prediction accuracy, ranges from 0 to 9, bigger is better.