Assignment 5 fallback data
Revision as of 20:05, 27 November 2007 by Boris (talk | contribs) (→PHYLIP input data: Mbp1 orthologues)
Please remember: if you use information from this page as a fallback for technical problems with the assignment, you must document this in your submission. State what you tried, what didn't work and only then use the data from here.
Contents
PHYLIP input data: All APSES domains (derived from Muscle-MSA)
69 76 Mbp1_SACCEMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLKETHEKVQGGFGKYQGTWVPLNIAKQLAEK-FSVYDQLKPLF Mbp1_ASHGOMKRKADDWVNATHILKAAKFAKAKRTRILEKEVIKDTHEKVQGGFGKYQGTWVPLDIARRLAQK-FEVLEELRPLF Mbp1_ASPFUMRRRGDDWINATHILKVAGFDKPARTRILEREVQKGTHEKVQGGYGKYQGTWIPLHEGRLLAER-NNIIDKLRPIF Mbp1_ASPNIMRRRSDDWINATHILKVAGFDKPARTRILEREVQKGVHEKVQGGYGKYQGTWIPLQEGRQLAER-NNILDKLLPIF Mbp1_ASPTEMRRRADDWINATHILKVAGFDKPARTRILEREVQKGVHEKVQGGYGKYQGTWIPLPEGRLLAER-NNIIDKLRPIF Mbp1_CANALMRRKKDSWINATHILKIAKFPKAKRTRILEKDVQTGIHEKVQGGYGKYQGTYVPLDLGAAIARN-FGVYDVLKPIF Mbp1_CANGLMKRKNDGWVNATHILKAANFAKAKRTRILEKEVLKEMHEKVQGGFGKYQGTWVPLNIAINLAEK-FDVYQDLKPLF Mbp1_COPCIMRRRSDSWLNATQILKVAGFDKPQRTRVLEREVQKGEHEKVQGGYGKYQGTWIPLERGMQLAKQ-YNCEHLLRPII Mbp1_CRYNEMRRASDSWVNATQILKVAGVHKSARTKILEKEVLNGIHEKIQGGYGKYQGTWVPLDRGRDLAEQ-YGVGSYLSSVF Mbp1_DEBHAMRRKLDSWINATHILKIAKFPKAKRTRILEKDVQTGVHEKVQGGYGKYQGTYVPLDLGADIAKN-FGVFDSLRPIF Mbp1_GIBZEMRRRSDDWINATHILKAAGFDKPARTRILERDVQKDVHEKIQGGYGKYQGTWIPLESGQALAER-HSVIDRLRPIF Mbp1_KLULAMKRKADNWVNATHILKAAKFPKAKRTRILEKEVITDTHEKVQGGFGKYQGTWIPLELASKLAEK-FEVLDELKPLF Mbp1_MAGGRMRRRVDDWINATHILKAAGFDKPARTRILEREVQKDQHEKVQGGYGKYQGTWIPLEAGEALAHR-NNIFDRLRPIF Mbp1_NEUCRMRRRHDDWVNATHILKAAGFDKPARTRILEREVQKDTHEKIQGGYGRYQGTWIPLEQAEALARR-NNIYERLKPIF Mbp1_PICSTMRRKLDSWINATHILKIAKFPKAKRTRILEKDVQTGVHEKVQGGYGKYQGTYVPLELGRDIAKN-FGVFDILKPIF Mbp1_SCHPOMKRCHDNWLNATQILKIAELDKPRRTRILEKFAQKGLHEKIQGGCGKYQGTWVPSERAVELAHE-YNVFDLIQPLI Mbp1_USTMAMRRRSDDWLNATQILKVVGLDKPQRTRVLEREIQKGIHEKVQGGYGKYQGTWIPLDVAIELAER-YNIQGLLQPIT Mbp1_YARLIMRRKSDGWVNATHILKVAGFDKPQRTRILEKEVQKGVHEKVQGGYGKYQGTWVPLERAREIATL-YDVDSHLAPIF Swi4_ASHGOMRRLHDDWVNITQVFKVATFSKTQRTKILEKESADISHEKIQGGYGRFQGTWIPLDSAKGLVAK-YEITDIVV--- Sok2_ASHGOVRRADNDMINGTKLLNVAKMTRGRRDGILKAEK---VRHVVKIGSMHLKGVWIPFERALALAQR-EKIVDMLFPLF MbpB_ASPFUMWDYNIGLVRTTHLFKCNDYS-----KMLNANPLREICHSITGGALAAQGYWMPYEAAKAVAATFWKIRHALTPLF MbpA_ASPFUMKRRSDSWLNATQILKVAGVVKARRTKTLEKEIAAGEHEKVQGGYGKYQGTWVNYQRGVELCRE-YHVEELLRPLL Sok2_ASPFUARREDNHMINGTKLLNVAGMTRGRRDGILKSEK---VRHVVKIGPMHLKGVWIPFERALEFANK-EKITDLLYPLF MbpB_ASPNISWDYNVGLVLTRSLFKCNGHPKTAPAKVLKMNPLGDISHSITGGALVGQGYWMPFRAAKALATTFWNIRFVLTPMF SokB_ASPNIMWDYNIGLVRTTHLFKCNDYSKTTPAKMLNQNPLRDICHSITGGALAAQGYWMPYEAAKAIAATFWKIRFALTPLF MbpA_ASPNIMKRRSDSWLNATQILKVAGVVKARRTKTLEKEIAAGEHEKVQGGYGKYQGTWVNYQRGVELCRE-YHVEELLRPLL SokA_ASPNIARREDNGMINGTKLLNVAGMTRGRRDGILKSEK---VRNVVKIGPMHLKGVWIPFDRALEFANK-EKITDLLYPLF Sok2_ASPNIARREDNHMINGTKLLNVAGMTRGRRDGILKSEK---VRHVVKIGPMHLKGVWIPFERALEFANK-EKITDLLYPLF MbpB_ASPTEMWDYNIGLVRTTPLFRSQNYSKTTPAKVLDANPLREISHSITGGAIVAQGYWIPFEAAKAVAATFWRIRYALTPIF MbpA_ASPTEMKRRSDSWLNATQILKVAGVVKARRTKTLEKEIAAGEHEKVQGGYGKYQGTWVNYQRGVDLCRE-YHVEELLRPLL Sok2_ASPTEARREDNSMINGTKLLNVAGMTRGRRDGILKSEK---IRHVVKIGPMHLKGVWIPFERALEFANK-EKITDLLYPLF MbpC_CANALLRRVQDSFVNVTQLFQILVLPTSQVDNYFDNEILSNLKYFGSSSYLDLRGIWIPYDKAVNLALK-FDIYEITKKLF MbpB_CANALIWDYETGWVHLTGIWKASGSNKADIVKLLESTPYQQYIKRIRGGFLKIQGTWLPYKLCKILARRFYYLRYSLIPIF MbpA_CANALMRRCKDDWVNATQILKCCNFPKAKRTKILEKGVQQGLHEKVQGGFGRFQGTWIPLEDARKLAKT-YGVTEELAPVL Sok2_CANALSRREDTNYINGTKLLNVIGMTRGKRDGILKTEK---IKNVVKVGSMNLKGVWIPFDRAYEIARN-EGVDSLLYPLF Phd1_CANALVRRADNNMINGTKLLNVAQMTRGRRDGILKSEK---VRHVVKIGSMHLKGVWIPFERALAMAQR-EQIVDMLYPLF SokA_CANGLVRRADNDMVNGTKLLNVTGMTRGRRDGILKNEP---VRDVVKGGPMTLKGVWIPIDRARAIARQ-EGIEQWLYPLF Swi4_CANGLMRRTMDDWVNVTQVFKIAQFSKTQRTKILEKESTNMKHEKVQGGYGRFQGTWVPLEAAKFMTTK-YNIDNVVNTIL Sok2_CANGLVRRADNDMINGTKLLNVTKMTRGKRDGILRSEK---YRKVVKIGSMHLKGVWIPFERALFIAKR-EKIVDLLYPLF MbpA_COPCIMMDIDDGYILWTGIWKALGNSKADIVKMIDSQPLAPLIRRVRGGYLKIQGTWMPYEVALKLSRRVWPIRHDLVPLF MbpA_CRYNEMRRRSDAYLNATQILKVAGFDKPQRTRVLEREVQKGEHEKVQGGYGKYQGTWIPIERGLALAKQ-YGVEDILRPII MbpB_DEBHAIWDYETGFVHLTGIWKASRNLKADIVKLLESTPYHQHIKRIRGGFLKIQGTWLPFDLCKMLAKRFYHIRFQLIPIF Swi4_DEBHALRRVQDSYINISQLFSILHLSEAQLTNFLNNEILTNTQYLSSGGFNDLRGLWIPYDRAVSLALK-FDIYELAKSLF MbpA_DEBHAMRRCKDDWVNATQILKCCNFPKAKRTKILEKGVQQGLHEKIQGGYGRFQGTWIPLADAQRLAAS-YGVTPDLAPVL SokA_DEBHASRREDTNYVNGTKLLNVAGMTRGKRDGILKTEK---TKSVVKVGAMNLKGVWIPFERASEIARN-EGIDGLLYPLF Sok2_DEBHAVRRADNNMINGTKLLNVAQMTRGRRDGILKSEK---VRHVVKIGSMHLKGVWIPFERALAMAQR-EGIVDLLYPLF MbpB_GIBZEMWDYNIGLVRMTPFFKCRGYGKTIPAKMLGLNPLKEITHSITGGSIAAQGYWMPYRCAKAICATFHPIAGALIPIF MbpA_GIBZEMRRRNDSWLNATQILKVAGVDKGKRTKILEKEIQTGEHEKVQGGYGKYQGTWIKFERGLQVCRQ-YGVEELLRPLL Sok2_GIBZEARREDNHMINGTKLLNVAGMTRGRRDGILKSEK---VRHVVKIGPMHLKGVWIPYDRALDFANK-EKITELLYPLF Swi4_KLULAMRRCNDNWLNITQVFKAGSFTKAQRTKILEKEANEIKHEKIQGGYGRFQGTWIPWESTKYLVEK-YNINNVVKRIV Sok2_KLULAVRRADNDMINGTKLLNVTRMTRGRRDGILKAEK---IRHVVKIGSMHLKGVWIPFERALVMAQR-EKIVDLLYALF MbpB_MAGGRMWDYGCGLVRMTHFFKCRGYTKTVPGKVLNQNHLKDITYSITGGSISAQGYWMPFACARAVCATFHPIAGALIPIF MbpA_MAGGRMKRIGDSKLNATQILKVAGVEKGKRTKILEKEIQTGEHEKVQGGYGKYQGTWIKYERALEVCRQ-YGVEELLRPLL Sok2_MAGGRARREDNHMINGTKLLNVAGMTRGRRDGILKSEK---MRHVVKIGPMHLKGVWIPFERALDFANK-EKITELLYPLF MbpA_NEUCRMRRQKDGWVNATQILKVANIDKGRRTKILEKEIQIGEHEKVQGGYGKYQGTWIPFERGLEVCRQ-YGVEELLSKLL MbpA_PICSTMRRCKDDWVNATQILKCCNFPKAKRTKILEKGVQQGLHEKVQGGFGRFQGTWIPLPDAQRLATM-YGVTADAAPVL SokA_PICSTSRREDTNFVNGTKLLNVIGMTRGKRDGILKTEK---TRNVVKVGSMNLKGVWIPFDRAFEIARN-EGVDEALHPLF Sok2_PICSTVRRADNNMINGTKLLNVAQMTRGRRDGILKSEK---VRHVVKIGSMHLKGVWIPFERALAMAQR-EGIVDLLYPLF Sok2_SACCEVRRADNDMVNGTKLLNVTKMTRGRRDGILKAEK---IRHVVKIGSMHLKGVWIPFERALAIAQR-EKIADYLYPLF Phd1_SACCEVRRADNNMINGTKLLNVTKMTRGRRDGILRSEK---VREVVKIGSMHLKGVWIPFERAYILAQR-EQILDHLYPLF Swi4_SACCEMRRTKDDWINITQVFKIAQFSKTKRTKILEKESNDMQHEKVQGGYGRFQGTWIPLDSAKFLVNK-YEIIDVVNSIL MbpB_SCHPOLRRCPDSYFNISQILRLAGTSSSENAKELDDIIESGDYENVDSKHPQIDGVWVPYDRAISIAKR-YGVYEILQPLI MbpA_SCHPOMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGAHEKVQGGYGKYQGTWVPFQRGVDLATK-YKVDGIMSPIL MbpA_USTMAMIDVDTSFVRFTSITQALGKNKVNFGRLVKTCPLDPHITKLKGGYLSIQGTWLPFDLAKELSRRIWEIRDHLVPLF Swi4_USTMAMRRRGDGWLNATQILKIAGIEKTRRTKILEKSILTGEHEKIQGGYGKFQGTWIPLQRAQQVAAE-YNVSHLLQPIL MbpB_YARLIIWDYHTGYVHLTGLWKAIGNSKADIVKLIDNSPLEAVIRRVRGGYLKIQGTWVPYDIARALASRTYFIRFALIPLF MbpA_YARLIMRRRTDSSLNATQILKVAGVEKSKRTKILEKEILTGAHEKVQGGYGKYQGTWIPYERGVDLCRQ-YSVYDVLQPLL SokA_YARLIARREDNDMINGTKLLNVAGMTRGRRDGILKGEK---LRHVVKAGAMHLKGVWIPYDRALEFANK-EKIIDLLFPLF Sok2_YARLIARREDNNMINGTKLLNVVGMTRGRRDGILKTEK---IRHVVKIGAMHLKGVWIPYERALAFAQR-ERIVDVLYPLF
PHYLIP distance matrix: Mbp1 orthologues
16 MBP1_SACCE 0.000000 0.340197 0.641436 0.698015 1.217853 1.575914 1.679015 1.734556 2.205033 2.021848 2.012439 2.665819 1.676493 1.594736 1.572812 1.998416 MBP1_CANGL 0.340197 0.000000 0.573520 0.606792 1.101098 1.571271 1.788034 2.092392 1.858878 2.098264 2.010324 2.531040 1.531216 1.410911 1.432764 2.300807 MBP1_EREGO 0.641436 0.573520 0.000000 0.537044 1.273771 1.429173 1.510184 1.805609 1.780957 1.919228 1.961973 2.827827 1.791314 2.121850 1.882121 2.853653 MBP1_KLULA 0.698015 0.606792 0.537044 0.000000 1.191955 1.453182 1.674717 2.266314 2.264786 2.478006 2.696935 3.451189 2.487955 2.758670 2.041124 2.617325 MBP1_CANAL 1.217853 1.101098 1.273771 1.191955 0.000000 0.540067 1.525822 1.826937 1.371732 1.702409 1.765129 1.921376 1.853606 2.028292 1.834001 2.184056 MBP1_DEBHA 1.575914 1.571271 1.429173 1.453182 0.540067 0.000000 1.366472 2.111250 1.907877 2.038152 1.842951 2.041502 2.818372 2.349724 1.893817 3.091846 MBP1_YARLI 1.679015 1.788034 1.510184 1.674717 1.525822 1.366472 0.000000 1.458949 1.099978 1.258665 1.245131 1.791822 1.892723 1.798693 1.546586 2.470074 MBP1_SCHPO 1.734556 2.092392 1.805609 2.266314 1.826937 2.111250 1.458949 0.000000 1.965611 1.650181 1.760901 1.882590 1.829431 1.798599 1.652280 2.232678 MBP1_USTMA 2.205033 1.858878 1.780957 2.264786 1.371732 1.907877 1.099978 1.965611 0.000000 1.361737 1.543623 1.598177 1.516216 1.508336 1.687661 1.953468 MBP1_ASPNI 2.021848 2.098264 1.919228 2.478006 1.702409 2.038152 1.258665 1.650181 1.361737 0.000000 0.183195 1.506196 2.082772 1.858936 1.901732 2.043755 MBP1_ASPTE 2.012439 2.010324 1.961973 2.696935 1.765129 1.842951 1.245131 1.760901 1.543623 0.183195 0.000000 1.320001 1.972475 1.766234 1.810925 1.734993 MBP1_CRYNE 2.665819 2.531040 2.827827 3.451189 1.921376 2.041502 1.791822 1.882590 1.598177 1.506196 1.320001 0.000000 1.606068 1.876348 1.696345 1.378680 MBP1_GIBZE 1.676493 1.531216 1.791314 2.487955 1.853606 2.818372 1.892723 1.829431 1.516216 2.082772 1.972475 1.606068 0.000000 0.497095 0.523613 1.052197 MBP1_NEUCR 1.594736 1.410911 2.121850 2.758670 2.028292 2.349724 1.798693 1.798599 1.508336 1.858936 1.766234 1.876348 0.497095 0.000000 0.488870 1.020647 MBP1_MAGGR 1.572812 1.432764 1.882121 2.041124 1.834001 1.893817 1.546586 1.652280 1.687661 1.901732 1.810925 1.696345 0.523613 0.488870 0.000000 1.108262 MBP1_ASPFU 1.998416 2.300807 2.853653 2.617325 2.184056 3.091846 2.470074 2.232678 1.953468 2.043755 1.734993 1.378680 1.052197 1.020647 1.108262 0.000000
PHYLIP input data: Mbp1 APSES domains
16 84 MBP1_SACCESIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLKETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDG MBP1_CANGLSIMKRKNDGWVNATHILKAANFAKAKRTRILEKEVLKEMHEKVQGGFGKYQGTWVPLNIAINLAEKFDVYQDLKPLFDFSEENG MBP1_EREGOSIMKRKADDWVNATHILKAAKFAKAKRTRILEKEVIKDTHEKVQGGFGKYQGTWVPLDIARRLAQKFEVLEELRPLFDFTRRDG MBP1_KLULASIMKRKADNWVNATHILKAAKFPKAKRTRILEKEVITDTHEKVQGGFGKYQGTWIPLELASKLAEKFEVLDELKPLFDFTQQEG MBP1_CANALPIMRRKKDSWINATHILKIAKFPKAKRTRILEKDVQTGIHEKVQGGYGKYQGTYVPLDLGAAIARNFGVYDVLKPIFEFQYIEG MBP1_DEBHAPIMRRKLDSWINATHILKIAKFPKAKRTRILEKDVQTGVHEKVQGGYGKYQGTYVPLDLGADIAKNFGVFDSLRPIFEFTYVEG MBP1_YARLIAVMRRKSDGWVNATHILKVAGFDKPQRTRILEKEVQKGVHEKVQGGYGKYQGTWVPLERAREIATLYDVDSHLAPIFNYDDEDG MBP1_SCHPOSVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGAHEKVQGGYGKYQGTWVPFQRGVDLATKYKVDGIMSPILSLDIDEG MBP1_USTMAAVMRRRSDDWLNATQILKVVGLDKPQRTRVLEREIQKGIHEKVQGGYGKYQGTWIPLDVAIELAERYNIQGLLQPITSYVPS-- MBP1_ASPNISVMRRRSDDWINATHILKVAGFDKPARTRILEREVQKGVHEKVQGGYGKYQGTWIPLQEGRQLAERNNILDKLLPIFDYVA--G MBP1_ASPTESVMRRRADDWINATHILKVAGFDKPARTRILEREVQKGVHEKVQGGYGKYQGTWIPLPEGRLLAERNNIIDKLRPIFDYVA--G MBP1_CRYNESVMRRASDSWVNATQILKVAGVHKSARTKILEKEVLNGIHEKIQGGYGKYQGTWVPLDRGRDLAEQYGVGSYLSSVFDFVPSAS MBP1_GIBZEAVMRRRNDSWLNATQILKVAGVDKGKRTKILEKEIQTGEHEKVQGGYGKYQGTWIKFERGLQVCRQYGVEELLRPLLTYDMGQD MBP1_NEUCRAVMRRQKDGWVNATQILKVANIDKGRRTKILEKEIQIGEHEKVQGGYGKYQGTWIPFERGLEVCRQYGVEELLSKLLTHNRGQE MBP1_MAGGRAVMKRIGDSKLNATQILKVAGVEKGKRTKILEKEIQTGEHEKVQGGYGKYQGTWIKYERALEVCRQYGVEELLRPLLEYNRNPD MBP1_ASPFUAVMKRRSDSWLNATQILKVAGVVKARRTKTLEKEIAAGEHEKVQGGYGKYQGTWVNYQRGVELCREYHVEELLRPLLEYDMGPN
PHYLIP distance matrix: Mbp1 APSES domains
16 MBP1_SACCE 0.000000 0.170047 0.205399 0.247219 0.487569 0.524603 0.579198 0.798266 0.690172 0.527376 0.544473 0.657178 0.895524 0.862050 0.905898 0.907783 MBP1_CANGL 0.170047 0.000000 0.279198 0.319549 0.559059 0.573474 0.519177 0.789154 0.733572 0.615596 0.625874 0.665870 0.899041 0.880370 0.935112 0.883959 MBP1_EREGO 0.205399 0.279198 0.000000 0.182532 0.544175 0.510304 0.585979 0.846715 0.738784 0.557436 0.539410 0.674472 0.880525 0.873348 0.850046 0.864623 MBP1_KLULA 0.247219 0.319549 0.182532 0.000000 0.467085 0.453277 0.638363 0.813078 0.772358 0.567769 0.575968 0.690719 0.852917 0.882337 0.830886 0.904034 MBP1_CANAL 0.487569 0.559059 0.544175 0.467085 0.000000 0.120290 0.589271 0.686670 0.799405 0.647996 0.639552 0.681593 0.746085 0.792284 0.817362 0.869237 MBP1_DEBHA 0.524603 0.573474 0.510304 0.453277 0.120290 0.000000 0.555420 0.667709 0.800353 0.592738 0.583278 0.641173 0.744716 0.811525 0.809515 0.839041 MBP1_YARLI 0.579198 0.519177 0.585979 0.638363 0.589271 0.555420 0.000000 0.473875 0.462053 0.388599 0.421408 0.503568 0.581799 0.593335 0.676734 0.691392 MBP1_SCHPO 0.798266 0.789154 0.846715 0.813078 0.686670 0.667709 0.473875 0.000000 0.532761 0.545135 0.573415 0.643554 0.593169 0.603559 0.762385 0.624657 MBP1_USTMA 0.690172 0.733572 0.738784 0.772358 0.799405 0.800353 0.462053 0.532761 0.000000 0.346127 0.383120 0.560953 0.597524 0.682290 0.675589 0.672514 MBP1_ASPNI 0.527376 0.615596 0.557436 0.567769 0.647996 0.592738 0.388599 0.545135 0.346127 0.000000 0.064477 0.503545 0.673114 0.778854 0.845557 0.762898 MBP1_ASPTE 0.544473 0.625874 0.539410 0.575968 0.639552 0.583278 0.421408 0.573415 0.383120 0.064477 0.000000 0.534114 0.699665 0.812899 0.847328 0.802412 MBP1_CRYNE 0.657178 0.665870 0.674472 0.690719 0.681593 0.641173 0.503568 0.643554 0.560953 0.503545 0.534114 0.000000 0.650085 0.653523 0.713330 0.695510 MBP1_GIBZE 0.895524 0.899041 0.880525 0.852917 0.746085 0.744716 0.581799 0.593169 0.597524 0.673114 0.699665 0.650085 0.000000 0.227631 0.185991 0.289073 MBP1_NEUCR 0.862050 0.880370 0.873348 0.882337 0.792284 0.811525 0.593335 0.603559 0.682290 0.778854 0.812899 0.653523 0.227631 0.000000 0.330632 0.480412 MBP1_MAGGR 0.905898 0.935112 0.850046 0.830886 0.817362 0.809515 0.676734 0.762385 0.675589 0.845557 0.847328 0.713330 0.185991 0.330632 0.000000 0.316199 MBP1_ASPFU 0.907783 0.883959 0.864623 0.904034 0.869237 0.839041 0.691392 0.624657 0.672514 0.762898 0.802412 0.695510 0.289073 0.480412 0.316199 0.000000
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