r-bioc-biostrings 2.30.1-1 / usr / lib / R / site-library / Biostrings / extdata / Phylip.txt

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/usr/lib/R/site-library/Biostrings/extdata/Phylip.txt is in r-bioc-biostrings 2.30.1-1.

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The actual contents of the file can be viewed below. 

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 25 181 W
Mask         1111111111 1111111111 1111111111 0011111111 1111111111
hprt_rhoca   YVID-QMISA KAIAARVEAL GAEITEAFKD T-LVVVGLLR GSFVFIADLI
hprt_haein   HHVD-VLISE NDVHARIAEL GAQITKFYQE KQLVVVGLLR GSFMFMADIV
hprt_haein   HHVD-VLISE NDVHARIAEL GAQITKFYQE KQLVVVGLLR GSFMFMADIV
hprt_vibha   HTVE-VMISE QEVQERIREL GKQITERYQG SELVMVGLLR GSFVFMADLA
hprt_ecoli   HTVE-VMIPE AEIKARIAEL GRQITERYKD SGMVLVGLLR GSFMFMADLC
hprt_merun   EDLEKVFIPH GLIMDRTERL ARDVMKEMGG HHIVALCVLK GGYKFFADLL
hprt_monke   EDLERVFIPH GLIMDRTERL ARDVMKEMGG HHIVALCVLK GGYKFFADLL
hprt_human   EDLERVFIPH GLIMDRTERL ARDVMKEMGG HHIVALCVLK GGYKFFADLL
hprt_rat     EDLEKVFIPH GLIMDRTERL ARDVMKEMGG HHIVALCVLK GGYKFFADLL
hprt_mouse   EDLEKVFIPH GLIMDRTERL ARDVMKEMGG HHIVALCVLK GGYKFFADLL
hprt_crigr   EDLEKVFIPH GVIMDRTERL ARDVMKEMGG HHIVALCVLK GGYKFFADLL
hprt_plafk   KYLTKVLVPN GVIKNRIEKL AYDIKKVYNN EEFHILCLLK GSRGFFTALL
hprt_plafg   KYLTKVLVPN GVIKNRIEKL AYDIKKVYNN EEFHILCLLK GSRGFFTALL
hgxr_toxog   PYIDKILLPG GLVKDRVEKL AYDIHRTYFG EELHIICILK GSRGFFNLLI
hprt_schma   ECLDYVLIPN GMIKDRLEKM SMDIVDYYEA CNITLMCVLK GGFKFLADLV
gprt_giard   DVLESLLATF EECKALAADT ARRMNEYYKD --VTLVALLT GAYLYASLLT
hprt_trybb   DFATSVLFTE AELHTRMRGV AQRIADDYSN CNLVIVSVLK GSFVFTADMV
hprt_tcruz   EFAEKILFTE EEIRTRIMEV AKRIADDYKG KGLVLISVLK GSFMFTADLC
hprt_leido   PMSAHTLVTQ EQVWAATAKC AKKIAEDYRS FKLYLLCVLK GSFIFTADLA
hprt_crifa   PMSCRTLATQ EQIWSATAKC AKQIAEDYKQ YNLYLLCVLK GSFMFTADLA
hgxr_trifp   DDLERVLYNQ DDIQKRIREL AAELTEFYED K-PVMICVLT GAVFFYTDLL
hprt_lacla   KAIEKVLVSE EEIIEKSKEL GEILTKEYEG K-PLVLGILR GSVPFLAELI
hprt_bacsu   HDIEKVLISE EEIQKKVKEL GAELTSEYQD T-PLAIGVLK GALPFMADLI
hprt_mycge   MGIKSIVINE QQIEEGCQKA VNWCNAKFNN KKVIVLGILK GCIPFLGKVI

             0000000000 0011111111 1111111100 1111111111 1110111111
             R---EIGVPC EVDFLEASSY GNETTSTREV RVLKDLRGII GGR-DVLVVE
             R---QINLPV EIEFMTTSSY GTGMTTNHDV RITKDLDGDI KGK-HVLIVE
             R---QINLPV EIEFMTTSSY GTGMTTNHDV RITKDLDGDI KGK-HVLIVE
             R---AIELTH QVDFMTASSY GNTMESSRDV RILKDLDDDI KGK-DVLIVE
             R---EVQVSH EVDFMTASSY GSGMSTTRDV KILKDLDEDI RGK-DVLIVE
             DYIKSLNRNT DRDFIRLKSY CNDQSTGDIK VIGGDDLSAL TGK-NVLIVE
             DYIKALNRNS DRDFIRLKSY CNDQSTGDIK VIGGDDLSTL TGK-NVLIVE
             DYIKALNRNS DRDFIRLKSY CNDQSTGDIK VIGGDDLSTL TGK-NVLIVE
             DYIKALNRNS DRDFIRLKSY CNDQSTGDIK VIGGDDLSTL TGK-NVLIVE
             DYIKALNRNS DRDFIRLKSY CNDQSTGDIK VIGGDDLSTL TGK-NVLIVE
             DYIKALNRNS DRDFIRLKSY CNDQSTGDIK VIGGDDLSTL TGK-NVLIVE
             KHLSRIHNYS AVHYVRVKSY CNDQSTGTLE IVS-EDLSCL KGK-HVLIVE
             KHLSRIHNYS AVHYVRVKSY CNDQSTGTLE IVS-EDLSCL KGK-HVLIVE
             DYLATIQKYS GRHYVRLKSY QNDNSTGQLT VLS-DDLSIF RDK-HVLIVE
             DGLERTVRAR GIEFVRVKSY VNDVSIHEPI LTGLGDPSEY KDK-NVLVVE
             VHLT------ --HFVKVSSY KGTRQES--V VFDEEDLKQL KEKREVVLID
             RILGDFGVPT RVEFLRASSY GHDTKSCGRV DVKADGLCDI RGK-HVLVLE
             RALSDFNVPV RMEFICVSSY GEGVTSSGQV RMLLDTRHSI EGH-HVLIVE
             RFLADEGVPV KVEFICASSY GTGVETSGQV RMLLDVRDSV ENR-HILIVE
             RFLCDEGVPV RIEFICASSY GTDVKTSGEV RLLLDVRDPV ENR-HLLIVE
             K---HLDFQL EPDYIICSSY -SGTKSTGNL TISKDLKTNI EGR-HVLVVE
             K---HIDCHL ETDFMTVSSY HGGTKSSGEV KLILDVDTAV KGR-DILIVE
             K---HIDTYL EMDFMDVSSY GNSTVSSGEV KIIKDLDTSV EGR-DILIIE
             ---SKFSFDL QLDFMAVASY HGSHVQKQPP KIVLDMSHDP KDK-DILLIE

             1111111111 0000000000 0000000000 0000000000 0000000000
             DIIDTGHTIS KVMEMLRARA PRR--IECCA MLDKP-SRRE VDVKARWTGF
             DIIDTGYTLE KVRDILNLRE PAS--LTICT LLDKP-SRRE VEVPVEWVGF
             DIIDTGYTLE KVRDILNLRE PAS--LTICT LLDKP-SRRE VEVPVEWVGF
             DIIDTGNTLN KIREILSLRE PKS--IAICT LLDKP-SRRE VEVPVDYVGF
             DIIDSGNTLS KVREILSLRE PKS--LAICT LLDKP-SRRE VNVPVEFIGF
             DIIDTGKTMQ TLLSLVQKYS PKM--VKVAS LLVKR-TPRS VGYRPDFVGF
             DIIDTGKTMQ TLLSLVRQYN PKM--VKVAS LLVKR-TPRS VGYKPDFVGF
             DIIDTGKTMQ TLLSLVRQYN PKM--VKVAS LLVKR-TPRS VGYKPDFVGF
             DIIDTGKTMQ TLLSLVKQYS PKM--VKVAS LLVKR-TSRS VGYRPDFVGF
             DIIDTGKTMQ TLLSLVKQYS PKM--VKVAS LLVKR-TSRS VGYRPDFVGF
             DIIDTGKTMQ TLLSLVKRYN LKM--VKVAS LLVKR-TSRS VGYRPDFVGF
             DIIDTGKTLV KFCEYLKKFE IKT--VAIAC LFIKR-TPLW NGFKADFVGF
             DIIDTGKTLV KFCEYLKKFE IKT--VAIAC LFIKR-TPLW NGFKADFVGF
             DIVDTGFTLT EFGERLKAVG PKS--MRIAT LVEKR-TDRS NSLKGDFVGF
             DIIDTGKTIT KLISHLDSLS TKS--VKVAS LLVKR-TSPR NDYRPD-VGF
             EYVDSGHTIF SIQEQIKHAK ICSCFVKDVD AIKKHSALAD TKMFYGYTPM
             DILDTALTLR EVVDSLKKSE PAS--IKTLV AIDKP-GGRK IPFTAEYVVA
             DIVDTALTLN YLYHMYFTRR PAS--LKTVV LLDKR-EGRR VPFSADYVVA
             DIVDSAITLQ YLMRFMLAKK PAS--LKTVV LLDKP-SGRK VEVLVDYPVI
             DIVDSAITLE YLKRFLQAKQ PAS--LKTVV LLDKP-SGRK VTLSVDYPVI
             DIIDTGLTMY QLLNNLQMRK PAS--LKVCT LCDKDIGKKA YDVPIDYCGF
             DIIDTGRTLK YLKELLEHRG AN---VKIVT LLDKP-EGRI VEIKPDYSGF
             DIIDSGLTLS YLVELFRYRK AKS--IKIVT LLDKP-SGRK ADIKADFVGF
             DIVDSGRSIK LVIDLLKTRH AKS--ITLIS LIEK-IKPKA FDINIDFSCF

             0000011111 1111111111 1111111111 1
             EIPDEFVVGY GLDYAQNHRN LPFIGTVRFT D
             EIPDEFVVGY GIDYAQRHRN LGYIGKVVLE E
             EIPDEFVVGY GIDYAQRHRN LGYIGKVVLE E
             AIPDEFVVGV GIDYAQKYRD LPFIGKVVPQ E
             SIPDEFVVGY GIDYAQRYRH LPYIGKVILL D
             EIPDKFVVGY ALDYNEYFRD LNHVCVISES G
             EIPDKFVVGY ALDYNEYFRD LNHVCVISET G
             EIPDKFVVGY ALDYNEYFRD LNHVCVISET G
             EIPDKFVVGY ALDYNEHFRD LNHVCVISES G
             EIPDKFVVGY ALDYNEYFRD LNHVCVISET G
             EIPDKFVVGY ALDYNEYFRD LNHICVISET G
             SIPDHFVVGY SLDYNEIFRD LDHCCLVNDE G
             SIPDHFVVGY SLDYNEIFRD LDHCCLVNDE G
             SIEDVWIVGC CYDFNEMFRD FDHVAVLSDA A
             EVPNRFVVGY ALDYNDNFRD LHHICVINEV G
             P-KGSWLIGF GLDDNGLRRG WAHLFDINLS E
             DVPNVFVVGY GLDYDQSYRE VRDVVILKPS V
             NIPNAFVIGY GLDYDDTYRE LRDIVVLRPE V
             TIPHAFVIGY GMDYAESYRE LRDICVLKKE Y
             TIPHAFVIGY GMDFAEAYRE LRDVCVLKKE Y
             VVENRYIIGY GFDFHNKYRN LPVIGILKES V
             TIPNEFVVGF GLDYEENYRN LPYVGVLKPE V
             EVPDAFVVGY GLDYAERYRN LPYIGVLKPA V
             KVKDNFLVGF GLDYDGFYRN LPYVGVFEPD N

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