Gene = DnaK [Halobacterium sp. NRC-1] A.K.A. - HEAT SHOCK PROTEIN startpnt="380553" endpnt="382442" strand="-1" pid="15789722" Upstream DNA region 382443 - 382492 gttacccg acagtacgga gcgttttctg tttaagcctt gctagtgcga cc >gi|15789722|ref|NP_279546.1| heat shock protein; DnaK [Halobacterium sp. NRC-1] MASEKILGVDLGTTNSAFAVMEGSDPEIITNEEGDRTTPSIVAHDDGELLVGKPAKNQAVQNPDQTIASI KRHMGEEDYTVALGDDEYTPEEISARILQKIKRDAEEYLGQDVEKAVITVPAYFNDRQRQATKDAGEIAG FDVERIVNEPTAASMAYGLDEDRDQTVLVYDLGGGTFDVSILDLGGGVYEVAATNGDNDLGGDDWDHAII DHLADNFENEHGIDLREDRQALQRLTEAAEEAKIELSSRKETTVNLPFVTATDSGPVHLEQDITRATFES ITEDLIERTVGPTEQALEDAGLSKSDIDDVILVGGSTRMPQVQAQVEDLVGQEPKKNVNPDEAVALGAAV QGGVLSGEVDDIVLVDVTPLSLGIEVKGGLFERLIEKNTAIPTTASKVFTTAADNQTSVQIRVFQGEREI ASENELLGDFHLTGIPPAPAGTPQIEVTFEIDADGIVNVEAEDQGSGNAESITIEGGAGLSDEQIDEMQE DAEAHAEEDEQRRRRIEARNEAETAIQRAESLLEENEELVDEDLEADVNDAIDDVQAVLDEDEPEIDALE TATEELSDTLQEIGKQAYQQQQDAQAGAAGGAGGMGGMGGMADGPGGAADADGDDEEYVDADFEDVDEE startpnt="12180" endpnt="14096" strand="1" pid="15799694" Upstream DNA region 12130 - 12179 tacagactca caaccacatg atgaccgaat atatagtgga gacgtttag >gi|15799694|ref|NP_285706.1| chaperone Hsp70; DNA biosynthesis; autoregulated heat shock proteins [Escherichia coli O157:H7 EDL933] MGKIIGIDLGTTNSCVAIMDGTTPRVLENAEGDRTTPSIIAYTQDGETLVGQPAKRQAVTNPQNTLFAIK RLIGRRFQDEEVQRDVSIMPFKIIAADNGDAWVEVKGQKMAPPQISAEVLKKMKKTAEDYLGEPVTEAVI TVPAYFNDAQRQATKDAGRIAGLEVKRIINEPTAAALAYGLDKGTGNRTIAVYDLGGGTFDISIIEIDEV DGEKTFEVLATNGDTHLGGEDFDSRLINYLVEEFKKDQGIDLRNDPLAMQRLKEAAEKAKIELSSAQQTD VNLPYITADATGPKHMNIKVTRAKLESLVEDLVNRSIEPLKVALQDAGLSVSDIDDVILVGGQTRMPMVQ KKVAEFFGKEPRKDVNPDEAVAIGAAVQGGVLTGDVKDVLLLDVTPLSLGIETMGGVMTTLIAKNTTIPT KHSQVFSTAEDNQSAVTIHVLQGERKRAADNKSLGQFNLDGINPAPRGMPQIEVTFDIDADGILHVSAKD KNSGKEQKITIKASSGLNEDEIQKMVRDAEANAEADRKFEELVQTRNQGDHLLHSTRKQVEEAGDKLPAD DKTAIESALTALETALKGEDKAAIEAKMQELAQVSQKLMEIAQQQHAQQQTAGADASANNAKDDDVVDAE FEEVKDKK startpnt="12163" endpnt="14079" strand="1" pid="16128008" Upstream DNA region 12113 - 12162 ttacagac tcacaaccac atgatgaccg aatatatagt ggagacgttt ag >gi|16128008|ref|NP_414555.1| chaperone Hsp70; DNA biosynthesis; autoregulated heat shock proteins [Escherichia coli K12] MGKIIGIDLGTTNSCVAIMDGTTPRVLENAEGDRTTPSIIAYTQDGETLVGQPAKRQAVTNPQNTLFAIK RLIGRRFQDEEVQRDVSIMPFKIIAADNGDAWVEVKGQKMAPPQISAEVLKKMKKTAEDYLGEPVTEAVI TVPAYFNDAQRQATKDAGRIAGLEVKRIINEPTAAALAYGLDKGTGNRTIAVYDLGGGTFDISIIEIDEV DGEKTFEVLATNGDTHLGGEDFDSRLINYLVEEFKKDQGIDLRNDPLAMQRLKEAAEKAKIELSSAQQTD VNLPYITADATGPKHMNIKVTRAKLESLVEDLVNRSIEPLKVALQDAGLSVSDIDDVILVGGQTRMPMVQ KKVAEFFGKEPRKDVNPDEAVAIGAAVQGGVLTGDVKDVLLLDVTPLSLGIETMGGVMTTLIAKNTTIPT KHSQVFSTAEDNQSAVTIHVLQGERKRAADNKSLGQFNLDGINPAPRGMPQIEVTFDIDADGILHVSAKD KNSGKEQKITIKASSGLNEDEIQKMVRDAEANAEADRKFEELVQTRNQGDHLLHSTRKQVEEAGDKLPAD DKTAIESALTALETALKGEDKAAIEAKMQELAQVSQKLMEIAQQQHAQQQTAGADASANNAKDDDVVDAE FEEVKDKK startpnt="866033" endpnt="867937" strand="1" pid="15602601" Upstream DNA region 865983 - 866032 cgaatgat tcactattaa cgaatttaca agtttatttt aggagaaaca aa >gi|15602601|ref|NP_245673.1| DnaK [Pasteurella multocida] MGKIIGIDLGTTNSCVAVMDGDKPRVIENAEGDRTTPSIIAYTQDNETLVGQPAKRQAVTNPKNTLFAIK RLIGRRFQDEEVQRDVSIMPFEIVAADNGDAWVGVKGEKMAPPQISAEVLKKMKKTAEDFLGEPVTEAVI TVPAYFNDAQRQATKDAGRIAGLEVKRIINEPTAAALAYGLDKGQGNKTIAVYDLGGGTFDLSIIEIDEV GGEKTFEVLSTNGDTHLGGEDFDNRVINYLVDEFKKEQGVDLRNDPLAMQRLKEAGEKAKIELSSAQQTD VNLPYITADATGPKHLNIKLTRAKLESLVEDLVSRSLEPVKIALADAGLSVSQIDDVILVGGQTRMPLVQ QKVEAFFGKAPRKDVNPDEAVAIGAAVQGGVLAGDVKDVLLLDVTPLSLGIETMGGVMTTLIEKNTTIPT KKSQVFSTAEDNQSAVTIHVLQGERKRAADNKSLGQFNLEGINPAPRGMPQIEVTFDIDADGIIHVSAKD KGTNKEQKITIKASSGLTDEEIQQMVRDAEANAEADRKFEELVQARNQADHLVHGTRKQLSEVGDKLSAE DKAPIEKAVADLEAAAKGEDKAEIETKVQALIQVSEKLMQAAQPQPEAQAQQAQSGKSNDDVVDAEFEEV KDNK startpnt="920423" endpnt="922330" strand="1" pid="15640871" Upstream DNA region 919373 - 920422 acattagg ggtatacaaa ctcgaacata gaattttttt ggagatagcc tg >gi|15640871|ref|NP_230502.1| dnaK protein [Vibrio cholerae] MGKIIGIDLGTTNSCVAVLDGDKPRVIENAEGERTTPSVIAYTDGETLVGQPAKRQAVTNPQNTLFAIKR LIGRRFEDEEVQRDIKIMPYKIVKADNGDAWVEAKGQKMAAPQVSAEVLKKMKKTAEDFLGEPVTAAVIT VPAYFNDAQRQATKDAGRIAGLEVKRIINEPTAAALAYGLDKQGGDRTIAVYDLGGGTFDISIIEIDEVE GEKTFEVLSTNGDTHLGGEDFDNRMINYLVDEFKKDQGIDLRNDPLAMQRLKEAAEKAKIELSSAQQTDV NLPYITADATGPKHMNIKVTRAKLEALVEDLVQRSLEPLKVALADADLSVNDITDVILVGGQTRMPMVQK KVAEFFGKEPRKDVNPDEAVAVGAAVQGGVLAGEVKDVLLLDVTPLSLGIETMGGVMTKLIEKNTTIPTK ANQVFSTAEDNQSAVTIHVLQGERKQAMYNKSLGQFNLEGINPAPRGMPQIEVIFDLDADGILHVSAKDK QTGKEQKITIQASGGLSDAEIEKMVQEAEANKEADKKFEELATARNQADQMIHATRKQITEAGEALPADE KAKIETAINELETAKKGEDKAEIDAKVQALMAAAQKLMEIAQQQAQAQGANAGQSSAKEDDVVDAEFEEV NDDKK CLUSTAL W (1.81) Multiple Sequence Alignments Sequence format is Pearson Sequence 1: gi|15790183|ref|NP_280007.1| 440 aa Sequence 2: gi|16131999|ref|NP_418598.1| 432 aa Sequence 3: gi|15804766|ref|NP_290807.1| 432 aa Sequence 4: gi|15602803|ref|NP_245875.1| 432 aa Sequence 5: gi|16273522|ref|NP_439775.1| 432 aa Sequence 6: gi|15642597|ref|NP_232230.1| 432 aa Start of Pairwise alignments Aligning... Sequences (1:2) Aligned. Score: 37.7315 Sequences (1:3) Aligned. Score: 37.5 Sequences (1:4) Aligned. Score: 37.2685 Sequences (1:5) Aligned. Score: 37.037 Sequences (1:6) Aligned. Score: 35.8796 Sequences (2:2) Aligned. Score: 100 Sequences (2:3) Aligned. Score: 99.537 Sequences (2:4) Aligned. Score: 76.8519 Sequences (2:5) Aligned. Score: 75.6944 Sequences (2:6) Aligned. Score: 75.9259 Sequences (3:2) Aligned. Score: 99.537 Sequences (3:3) Aligned. Score: 100 Sequences (3:4) Aligned. Score: 76.3889 Sequences (3:5) Aligned. Score: 75.2315 Sequences (3:6) Aligned. Score: 75.463 Sequences (4:2) Aligned. Score: 76.8519 Sequences (4:3) Aligned. Score: 76.3889 Sequences (4:4) Aligned. Score: 100 Sequences (4:5) Aligned. Score: 90.9722 Sequences (4:6) Aligned. Score: 69.9074 Sequences (5:2) Aligned. Score: 75.6944 Sequences (5:3) Aligned. Score: 75.2315 Sequences (5:4) Aligned. Score: 90.9722 Sequences (5:5) Aligned. Score: 100 Sequences (5:6) Aligned. Score: 70.6019 Sequences (6:2) Aligned. Score: 75.9259 Sequences (6:3) Aligned. Score: 75.463 Sequences (6:4) Aligned. Score: 69.9074 Sequences (6:5) Aligned. Score: 70.6019 Sequences (6:6) Aligned. Score: 100 Guide tree file created: [clustal.dnd] Start of Multiple Alignment There are 5 groups Aligning... Group 1: Sequences: 2 Score:9076 Group 2: Sequences: 2 Score:9322 Group 3: Sequences: 3 Score:8356 Group 4: Sequences: 5 Score:8296 Group 5: Sequences: 6 Score:6451 Alignment Score 27066 CLUSTAL-Alignment file created [clustal.aln]Clustal output
CLUSTAL W (1.81) multiple sequence alignment gi|15602803|ref|NP_245875.1| MGKSVVILGAQWGDEGKGKIVDLLTDRVKYVVRYQGGHNAGHTLIINGEK gi|16273522|ref|NP_439775.1| MGKSVVILGAQWGDEGKGKIVDLLTDRVKYVVRYQGGHNAGHTLIINGEK gi|16131999|ref|NP_418598.1| MGNNVVVLGTQWGDEGKGKIVDLLTERAKYVVRYQGGHNAGHTLVINGEK gi|15804766|ref|NP_290807.1| MGNNVXVLGTQWGDEGKGKIVDLLTERAKYVVRYQGGHNAGHTLVINGEK gi|15642597|ref|NP_232230.1| MGNNVVVLGTQWGDEGKGKIVDLLTEDAKYVVRYQGGHNAGHTLVIDGQK gi|15790183|ref|NP_280007.1| --MTVTIVGAQLGDEGKGGVVDLFGDATDVVVRYQGGDNAGHTVVAGGEE .* ::*:* ****** :***: : .. *******.*****:: .*:: gi|15602803|ref|NP_245875.1| TVLRLIPSGILRENVTCLIGNGVVLSPAALMQEMGELESRGINVRERLLI gi|16273522|ref|NP_439775.1| TVLRLIPSGMLHPNVTCLIGNGVVVSPEALMKEMGELESRGIKVRERLLI gi|16131999|ref|NP_418598.1| TVLHLIPSGILRENVTSIIGNGVVLSPAALMKEMKELEDRGIPVRERLLL gi|15804766|ref|NP_290807.1| TVLHLIPSGILRENVTSIIGNGVVLSPAALMKEMKELEDRGIPVRERLLL gi|15642597|ref|NP_232230.1| TVLHLIPSGILRNNVKCIIGNGVVLSPEALIKEMSGLEDRGVPVRERLFI gi|15790183|ref|NP_280007.1| YKLSLVPSGVVRG-KTGVLGNGCVINPETLFEEVDALRERGLDPDVR--L * *:***::: . ::*** *:.* :*::*: *..**: * : gi|15602803|ref|NP_245875.1| SEACPLILPYHVAMDHAREAALGKN--KIGTTGRGIGPAYEDKVARRGLR gi|16273522|ref|NP_439775.1| SEACPLILPYHVAMDHAREAALGKK--AIGTTGRGIGPAYEDKVARRGLR gi|16131999|ref|NP_418598.1| SEACPLILDYHVALDNAREKARGAK--AIGTTGRGIGPAYEDKVARRGLR gi|15804766|ref|NP_290807.1| SEACPLILDYHVALDNAREKARGAK--AIGTTGRGIGPAYEDKVARRGLR gi|15642597|ref|NP_232230.1| SEACPLILPYHVALDQAREAARGKK--AIGTTGRGIGPAYEDKVARRGLR gi|15790183|ref|NP_280007.1| AKRAHVILPFHRELDGAEEAAKADSDSEIGTTGRGIGPTYEDKIGRRGVR :: . :** :* :* *.* * . . **********:****:.***:* gi|15602803|ref|NP_245875.1| VGDLFNREAFAEKLKTILDYYNFQLVNYYKAEA------VDFQKTLDDVM gi|16273522|ref|NP_439775.1| VGDLFNKEAFAEKLKNILEYYNFQLVNYYKVEP------VDYQKTLDDVM gi|16131999|ref|NP_418598.1| VGDLFDKETFAEKLKEVMEYHNFQLVNYYKAEA------VDYQKVLDDTM gi|15804766|ref|NP_290807.1| VGDLFDKETFAEKLKEVMEYHNFQLVNYYKAEA------VDYQKVLDDTM gi|15642597|ref|NP_232230.1| VGDLFDMASFAEKLQEVMAFHNFQLEHFYKVEP------VSYEAVLEQAK gi|15790183|ref|NP_280007.1| VGDLLNEDALRDRLEYLVDAKRAIYEDVYGFDASETDGAFDIDAIHEQCL ****:: :: ::*: :: . . * :. .. : :: gi|15602803|ref|NP_245875.1| AVADIITG--MVADVTTMLDKARKNGDNILFEGAQGTMLDIDHGTYPFVT gi|16273522|ref|NP_439775.1| AIADVITG--MVADITTILDTARKNGEHILFEGAQGTMLDIDHGTYPYVT gi|16131999|ref|NP_418598.1| AVADILTS--MVVDVSDLLDQARQRGDFVMFEGAQGTLLDIDHGTYPYVT gi|15804766|ref|NP_290807.1| AVADILTS--MVVDVSDLLDQARQRGDFVMFEGAQGTLLDIDHGTYPYVT gi|15642597|ref|NP_232230.1| GYAELLTS--MVIDVTNELDAARKRGDKIMFEGAQGTLLDIDHGTYPYVT gi|15790183|ref|NP_280007.1| AYADRIRDEDLAVNAGDYLADRIADGDNVMLEGAQGTSLDIDHGNFPYVT . *: : . :. : * *: :::****** ******.:*:** gi|15602803|ref|NP_245875.1| SSNTTAGGVATGAGFGPRNLDY--VLGIIKAYCTRVGGGPFTTELFDEVG gi|16273522|ref|NP_439775.1| SSNTTAGGVATGSGFGPRNLDY--VLGIIKAYCTRVGGGPFTTELFDDVG gi|16131999|ref|NP_418598.1| SSNTTAGGVATGSGLGPRYVDY--VLGILKAYSTRVGAGPFPTELFDETG gi|15804766|ref|NP_290807.1| SSNTTAGGVATGSGLGPRYVDY--VLGILKAYSTRVGAGPFPTELFDETG gi|15642597|ref|NP_232230.1| SSNTTAGGVAAGSGFGPRHLGY--ILGIAKAYCTRVGAGPFPTELFDEVG gi|15790183|ref|NP_280007.1| SSNPTAGYAATGSGLGPTTVGQGEIVGIIKAYLSRVGSGPMPTELDGDQA ***.*** .*:*:*:** :. ::** *** :***.**:.*** .: . gi|15602803|ref|NP_245875.1| SEIARKGNEFGAVTGRPRRCGWFDAVAIRRAIQLNSISGFCMTKLDVLDG gi|16273522|ref|NP_439775.1| AEIARKGNEFGAVTGRPRRCGWFDAVAIRRAIQLNSISGFCMTKLDVLDG gi|16131999|ref|NP_418598.1| EFLCKQGNEFGATTGRRRRTGWLDTVAVRRAVQLNSLSGFCLTKLDVLDG gi|15804766|ref|NP_290807.1| EFLCKQGNEFGATTGRRRRTGWLDTVAVRRAVQLNSLSGFCLTKLDVLDG gi|15642597|ref|NP_232230.1| DHLGTKGHEFGATTGRKRRCGWFDAVAMRRAIQINSVTGFCLTKLDVLDG gi|15790183|ref|NP_280007.1| EYIREEGGEYGTVTGRPRRVGWLDMPMLRHAARANGFTGIAINHLDVLAE : :* *:*:.*** ** **:* :*:* : *..:*:.:.:**** gi|15602803|ref|NP_245875.1| FDEVKICVAYKMPNGDILDYAPLAAKDWEGVEPIYETMPGWKENTFGVTD gi|16273522|ref|NP_439775.1| FDEVKICVAYKMPNGEIVEYAPLAAKDWEGVEPIYETLPGWKENTFRITD gi|16131999|ref|NP_418598.1| LKEVKLCVAYRMPDGREVTTTPLAADDWKGVEPIYETMPGWSESTFGVKD gi|15804766|ref|NP_290807.1| LKEVKLCVAYRMPDGREVTTTPLAADDWKGVEPIYETMPGWSESTFGVKD gi|15642597|ref|NP_232230.1| LKEIKICTGYQMPDGSIAEVSPMAADAFENVTPIFETMPGWSETTFGAKT gi|15790183|ref|NP_280007.1| LDEVNVGHAYER-DGERIHTLPATTEAWRDCDPVMKSFDGWSAFDPAVVA :.*::: .*. :* * ::. :.. *: ::: **. gi|15602803|ref|NP_245875.1| VN---QLPEACRNYVKRIEEVTGVPVDILSTGPDRVETMILRDPFAA gi|16273522|ref|NP_439775.1| VN---KLPQNCINYIKRIEEVTGVPIDILSTGPDRVETMILREPFAA gi|16131999|ref|NP_418598.1| RS---GLPQAALNYIKRIEELTGVPIDIISTGPDRTETMILRDPFDA gi|15804766|ref|NP_290807.1| RS---GLPQAALNYIKRIEELTGVPIDIISTGPDRTETMILRDPXDA gi|15642597|ref|NP_232230.1| LA---ELPQTALDYIKRIEELTGVPVDIISTGPDRNETIIKVHPFSA gi|15790183|ref|NP_280007.1| DAGYSALPDNAQAYVEYVEAELDTPAYVLGVGPGREESVIRQNPFE- **: . *:: :* ..* ::..**.* *::* .*Tree construction
CLUSTAL W (1.81) Multiple Sequence Alignments Sequence format is Clustal Sequence 1: gi|15602803|ref|NP_245875.1| 447 aa Sequence 2: gi|16273522|ref|NP_439775.1| 447 aa Sequence 3: gi|16131999|ref|NP_418598.1| 447 aa Sequence 4: gi|15804766|ref|NP_290807.1| 447 aa Sequence 5: gi|15642597|ref|NP_232230.1| 447 aa Sequence 6: gi|15790183|ref|NP_280007.1| 447 aa Phylogenetic tree file created: [clustal.ph]+---1:gi|15602803|ref|NP_245875.1| +--------8 | +---2:gi|16273522|ref|NP_439775.1| | --7 +--3:gi|16131999|ref|NP_418598.1| | +---------10 | +--9 +--4:gi|15804766|ref|NP_290807.1| | | | +-11 +-------------5:gi|15642597|ref|NP_232230.1| | +-------------------------------------------6:gi|15790183|ref|NP_280007.1|Midpoint-rooted tree:
+------1:gi|15602803|ref|NP_245875.1| +------------8 | +------2:gi|16273522|ref|NP_439775.1| +--------------------11 | | +--3:gi|16131999|ref|NP_418598.1| | | +-------------10 --7 +--9 +--4:gi|15804766|ref|NP_290807.1| | | | +--------------------5:gi|15642597|ref|NP_232230.1| | +--------------------------------------------6:gi|15790183|ref|NP_280007.1|Remember, this is an unrooted tree!
Bootstrapping tree
CLUSTAL W (1.81) Multiple Sequence Alignments Sequence format is Clustal Sequence 1: gi|15602803|ref|NP_245875.1| 447 aa Sequence 2: gi|16273522|ref|NP_439775.1| 447 aa Sequence 3: gi|16131999|ref|NP_418598.1| 447 aa Sequence 4: gi|15804766|ref|NP_290807.1| 447 aa Sequence 5: gi|15642597|ref|NP_232230.1| 447 aa Sequence 6: gi|15790183|ref|NP_280007.1| 447 aa Phylogenetic tree file created: [clustal.ph]