diff --git a/primerschemes/varvamp-hav/1000/v1.0.0/README.md b/primerschemes/varvamp-hav/1000/v1.0.0/README.md new file mode 100644 index 0000000..68a4cbb --- /dev/null +++ b/primerschemes/varvamp-hav/1000/v1.0.0/README.md @@ -0,0 +1,63 @@ +# varvamp-hav 1000bp v1.0.0 + +[primalscheme labs](https://labs.primalscheme.com/detail/varvamp-hav/1000/v1.0.0) + +## Description + +Pan-specfic primer scheme for HAV designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates. + +## Overviews + +![overview.png](work/overview.png) + +## Details + +```json +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-hav", + "primer_bed_md5": "06852b6301eb63495d9c2625b0e7f40c", + "reference_fasta_md5": "d65a09200bbec78ffa410740ba3143ff", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.3", + "species": [ + 470424 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "WHOLE-GENOME", + "CLINICAL-ISOLATES", + "COMMUNITY" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/HAV" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for HAV designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) diff --git a/primerschemes/varvamp-hav/1000/v1.0.0/info.json b/primerschemes/varvamp-hav/1000/v1.0.0/info.json new file mode 100644 index 0000000..d795ef1 --- /dev/null +++ b/primerschemes/varvamp-hav/1000/v1.0.0/info.json @@ -0,0 +1,39 @@ +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-hav", + "primer_bed_md5": "06852b6301eb63495d9c2625b0e7f40c", + "reference_fasta_md5": "d65a09200bbec78ffa410740ba3143ff", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.3", + "species": [ + 470424 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "WHOLE-GENOME", + "CLINICAL-ISOLATES", + "COMMUNITY" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/HAV" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for HAV designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} \ No newline at end of file diff --git a/primerschemes/varvamp-hav/1000/v1.0.0/primer.bed b/primerschemes/varvamp-hav/1000/v1.0.0/primer.bed new file mode 100644 index 0000000..0fdb5ea --- /dev/null +++ b/primerschemes/varvamp-hav/1000/v1.0.0/primer.bed @@ -0,0 +1,14 @@ +ambiguous_consensus 164 186 HAV_0_LEFT_1 0 + GGCGGGGTCAACTCCATGATTA +ambiguous_consensus 1567 1590 HAV_0_RIGHT_1 0 - TGNCCAACYGARTCHGAAGCATT +ambiguous_consensus 2225 2247 HAV_1_LEFT_1 0 + TGGATRTTTCAGGWGTVCAAGC +ambiguous_consensus 3394 3417 HAV_1_RIGHT_1 0 - TGWGGRAAATTMACTTTRGACCA +ambiguous_consensus 4170 4194 HAV_2_LEFT_1 0 + TGTYCAYTCAATGGCWCARGTTGA +ambiguous_consensus 5271 5295 HAV_2_RIGHT_1 0 - RGCATTCATRACCCATCTMACACA +ambiguous_consensus 5700 5722 HAV_3_LEFT_1 0 + GGTCTYCCWGGRATGTGYGGTG +ambiguous_consensus 7130 7152 HAV_3_RIGHT_1 0 - AYTCAGCRTTRCTTCTYTGCCA +ambiguous_consensus 1435 1459 HAV_4_LEFT_1 1 + GCWAGRGCAAARATGTCTTTTGCT +ambiguous_consensus 2560 2580 HAV_4_RIGHT_1 1 - GCCATDCCATCHACATCAGT +ambiguous_consensus 3281 3303 HAV_5_LEFT_1 1 + TGGATGCTGGRGTTCTKACTGG +ambiguous_consensus 4430 4453 HAV_5_RIGHT_1 1 - CATCCCARTAATCWGARGCMACA +ambiguous_consensus 4954 4978 HAV_6_LEFT_1 1 + CARTCTTTTCCMTCTGGTGARCCA +ambiguous_consensus 6134 6156 HAV_6_RIGHT_1 1 - GCCCCWGTWATRGCCATWTCAA diff --git a/primerschemes/varvamp-hav/1000/v1.0.0/reference.fasta b/primerschemes/varvamp-hav/1000/v1.0.0/reference.fasta new file mode 100644 index 0000000..639d5a2 --- /dev/null +++ b/primerschemes/varvamp-hav/1000/v1.0.0/reference.fasta @@ -0,0 +1,123 @@ +>ambiguous_consensus +NNNNGGCTWHDYBYNNYCCYTNTYYNNBYDTYNNGTAAATATWRATTCCTGCAGGTTCAG +GKYTCNTYDRATYNTGTTYCWCTWTAWGNRACACTCNTTTCACGCTTTCTGTCTBCNTTT +CTTCCAGGGCTCTCCCCTTGCCCTAGGCTCTGGCCGTTGCGCCCGGCGGGGTCAACTCCA +TGATTAGCATGGAGCTGTAGGAGTCTAAATTGGGGACRCAGATGTTKGGRACGTCRCCTT +GCAGTGTTAACTTGGCTYNTCATGAABCTYTTTGATCTTCCACAAGRGGTAGGCTACGGG +TGAAACCTCTTARGCTAATACTTCTATGAAGAGATGCYTTGGATAGGGTAACAGCGGCGG +AYATTGGTGAGTTGTTNWGACAAAAACCATTCAACGCCGGAGGACTGRCTCTCATCCAGT +GGATGCATTRAGTGRATTGWYTGTYAGGGCTGTCTYTAGGYTTAATYYCNWGACCTCTCT +GTGCTTRGGGCAAACAHHNAYTTGGCCTTAAATGRGRTYCTGTGAGAGGGGRYNCYCKCC +ATTGAMWGCTGGACWKTTCTTTGGGGCCTTNTGTDKTNGTTTGCCKCTGAGGTACTCAGG +GGCATTTAGGTTTTTCCTCATYHWYANAAYAATWATGAAYATGTCYARACARGGWATTTT +YCAGACTGTTGGGAGTGGYCTTGACCACATCCTGTCTYTGGCAGAYRTKGAGGARGARCA +AATGATYCARTCHGTKGATMGKACYGCAGTKACTGGDGCTTCWTAYTTYACKTCTGTKGA +YCAATCTTCWGTTCAYACWGCTGARGTTGGHTCACAYCARVYTGAACCTYTGARAACYTC +WGTTGAYAAACCHGGYTCHAARARRACHCARGGRGARAARTTTTTCYTKATTCATTCTGC +WGATTGGYTBACBACACATGCTYTBTTYCATGAAGTTGCAAAATTGGATGTGGTVARRYT +RYTRTAYAATGARCARTTTGCYGTYCARGGBYTGTTGAGRTAYCAYACWTATGCAAGATT +TGGMATTGARATWCAAGTTCAGATMAAYCCYACWCCHTTYCARCARGGDGGDYTRATHTG +TGCYATGGTKCCWGGWGAYCARAGYTATGGWTCDATAGCWTCHYTGACWGTTTATCCYCA +TGGYYTGTTRAATTGYAAYATYAAYAATGTRGTYAGAATWAAGGTTCCWTTYATTTAYAC +WAGRGGWGCTTAYCAYTTYAARGAYCCWCARTAYCCWGTYTGGGARTTRACWATYAGAGT +YTGGTCWGARYTRAAYATTGGRACWGGWACYTCHGCTTAYACWTCACTBAATGTBTTRGC +TAGRTTYACWGATTTGGARYTVCATGGRTTRACWCCTCTKTCYACACARATGATGAGRAA +TGAATTTAGRGTYAGTACHACWGARAATGTKGTDAATYTGTCMAATTATGAAGATGCWAG +RGCAAARATGTCTTTTGCTYTDGAYCARGAAGAYTGGAARTCTGATSCBTCYCARGGBGG +WGGRATYAAAATYACWCATTTTACWACYTGGACATCHATTCCMACYTTRGCTGCYCAGTT +TCCATTYAATGCTTCDGAYTCRGTTGGNCARCARATYAARGTTATWCCAGTKGAYCCATA +YTTYTTYCARATGACWAAYACWAAYCCTGAYCARAAATGTATAACTGCHYTGGCYTCHAT +HTGTCARATGTTTTGYTTYTGGAGRGGAGAYCTKGTYTTTGAYTTYCARGTTTTTCCHAC +MAAATATCATTCAGGHAGRYTRYTRTTTTGYTTTGTTCCTGGNAATGARYTRATWGATGT +YWCYSRMATHACAYTRAARCARGCMACYACTGCBCCYTGTGCWGTRATGGAYATWACWGG +AGTRCARTCAACYTTGAGATTTCGTGTTCCYTGGATTTCWGAYACWCCYTAYMGRGTDAA +YAGRTAYACVAARTCRKCACATCARAARGGHGARTAYACTGCYATWGGRAAGYTKATTGT +KTAYTGYTAYAAYAGAYTGACYTCTCCYTCYAAYGTKGCTTCYCATGTYAGRGTDAATGT +TTAYCTYTCAGCWATTAAYTTGGARTGYTTTGCTCCWCTYTAYCATGCHATGGATGTYAC +HACWCARGTTGGAGATGATTCWGGRGGYTTYTCWACVACWGTYTCWACARARCAGAATGT +TCCWGAYCCHCAAGTYGGYATWACAACHRTGARRGAYYTDAAAGGDARAGCHAAYMRRGG +RAARATGGATRTTTCAGGWGTVCAAGCWCCTNGTGGGAGCWATYANCWACMATTGARNGA +TCCAGTTTTRGCAAAGAAAGTRCCTGARACWTTYCCWGAATTGAARCCTGGAGARTCHAG +RCAYACWTCWGATCAYATGTCYATYTAYAARTTYATGGGVAGRTCTCAYTTYYTRTGYAC +WTTYACHTTYAATTCWAAYAAYAARGAGTACACWTTTCCWATWACYYTGTCWTCRACYTC +HAATCCTCCWCATGGWTTRCCWTCHACWYTRAGRTGGTTYTTYAAYYTKTTYCARYTKTA +TAGRGGDCCWTTRGAYYTRACAATWATWATHACWGGRGCHACTGATGTDGATGGHATGGC +YTGGTTYACWCCWGTDGGBYTKGCHGTHGAYACNCCYTGGGTDGARAAGGARTCWGCYYT +DTCYATTGAYTAYAARACWGCYCTTGGWGCTGTYAGRTTYAAYACMAGRAGAACAGGRAA +YATTCAGATYAGRYTRCCDTGGTAYTCYTATYTDTATGCYGTKTCWGGRGCAYTGGATGG +BYTKGGAGAYAARACRGATTCHACWTTTGGAYTKGTYTCYATTCARATTGCAAATTAYAA +TCAYTCWGAYGAATAYTTGTCYTTTAGTTGYTAYTTRTCTGTBACWGARCARTCWGAGTT +YTATTTTCCYAGAGCWCCWTTRAAYWCMAATGCYATGWTRTCMWCTGARWCMATGATGRR +YAGAATTGCWSYTGGWGAYYTKGARTCMTCRGTKGATGATCCYMGATCWGARGARGAYMR +WARATTTGARAGTCAYATWGAAWRBAGRAARCCWTAYAAAGARYTRAGAYTRGARGTTGG +NAARCAAAGACTHAARTATGCTCAGGAAGARTTRTCAAATGAAGTRYTKCCWCCYCCTMG +KAAAATKAARGGDBTRTTTTCACAAGCHAARATYTCWYTKTTTTAYACWGARGAKCATGA +AATWATGAARTTYTCYTGGARAGGWRTDACTGCTGAYACTAGRGCTYTRAGRAGRTTTGG +MTTYTCWHTRGCYGCWGGBAGRAGTGTGTGGACWCTKGARATGGATGCTGGRGTTCTKAC +TGGVAGRYTGRTBAGRBTSAATGATGARAAATGGACRGAAATGAARGATGAYAARATHGT +YTCWTTRRTBGARAARTTYACWAGYAAYAARYAYTGGTCYAAAGTKAATTTYCCWCATGG +VATGYTRGATYTKGAAGARATTGCTGCHAAYTCHAARGAHTTTCCWAAYATGTCWGARAC +DGAYTTGTGTTTCYTRYTSCATTGGYTRAATCCMAAGAARATHAAYTTRGCAGAYAGAAT +GYTKGGWYTRTCWGGRRTDCARGAAATWAAAGAAMARGGWGTKGGAYTRATWGSWGAGTG +YMGARCTTTYYTRGATTCWATWRCTRGDACTYTRAARTCHATGATGTTTGGDTTTCATCA +YTCTGTVACWGTTGAAATYATWAAYACTGTDYTBTGYTTTGTYAARAGTGGMATYYTRCT +DTATGTHATWCAACAATTRAAYCARGAKGARCAYTCYCAYATAATTGGYYTGTTGAGAGT +BATGAATTATGYWGAYATTGGBTGYTCWGTYATYTCATGTGGYAAAGTKTTYTCHAAAAT +GYTRGAAACWGTBTTTAATTGGCARATGGAYTCBAGAATGATGGAGYTVAGRACWCAGAG +YWTYTCHAAYTGGYTWAGRGAYATYTGTTCWGGDATHACHATTTTTAARARYTTYAARGA +TGCMATWTATTGGYTWTAYACAAAAWTVARRGAHTWTTATGAHSTRAATTATGGYAADAA +RAAGGAYRTTYTWAAYATTCTBAARGAYMAYCARCARAAAATWGARARAGCYATTGARGA +RGCHGAYAAWTTYTGYRTTYTKCARATYCARGATGTDGARAARTYTGAWCAGTAYCARAA +AGGRGTWGAYTTRATWCAAAARYTGAGRACTGTYCAYTCAATGGCWCARGTTGAYCCHRR +YYTDRBKGTYCATTTRKCMCCTYTBAGAGAYTGYATWGCHAGAGTYCAYCARAARYTHAA +RAAYYTKGGDTCWATWAAYCARGCHATGGTRACRAGRTGTGARCCAGTYGTBTGYTAYYT +VTATGGHAARAGRGGDGGRNGGRAARAGYYTRACWTCNAATTGCWTTGGCMANCMAAAAT +TTGYAAACAYNTATGGTGNTTGARCCWGARAARAATATHTAYACHAARCCTGTKGCYTCW +GATTAYTGGGATGGWTAYAGTGGRCAAYTRGTKTGYATYATTGATGAYATYGGYCAAAAY +ACAACWGATGARGAYTGGTCWGATTTTTGTCARTTRGTGTCWGGRTGYCCAATGAGRTTR +AAYATGGCYTCTYTKGARGARAAGGGYMGRCATTTTTCYTCWCCYTTYATAATWGCWACW +TCMAAYTGGTCWAATCCAAGTCCWAAAACAGTYTATGTKAARGAAGCHATWGAYCGYAGR +CTYCAYTTYAARGTTGARGTKAARCCYGCYTCATTYTTYAAAAATCCTCAYAATGATATG +TTRAATGTYARTYTRGCHAAAACWAATGATGCWATYAARGAYATGTCWTGTGTTGATYTR +RTWATGGATRGWCAYAATRTTTCAYTRWYKGAHTTRCTYAGTTCHYTRGTBATGACAGTT +GAWATTAGRAARCARAAYATGWSWGAATTYATGGARYTKTGGTCWCAGGGAWTNHTCAGA +TGATGAYAATGAYAGTGCAGTDGCYGARTTTTTCCARTCTTTTCCMTCTGGTGARCCATC +DRRYTCYARRTTRTCWVGBTTTTTCCAATCWGTYACYAAYCAYAARTGGGTTGCWGTKGG +RGCTGCWGTKGGHRTWCTYGGDGTKYTBGTKGGRGGDNTGGTWYGTSTAYAARCATTTYW +CHMRVARRSARGAAGARCCMATYCCARSTGAAGGRGTDTAYCATGGYGTRACHAARCCYA +ARCARGTRATYAAAYTRGATGCWGATCCWGTRGARTCNCARTCAACTYTRGNAAATWGCW +GGWYTRGTBAGRAARAAYYTKGTYCARTTYGGAGTTGGDGAGAARAATGGRTGTGTKAGA +TGGGTYATGAATGCYTTRGGARTKAARGATGATTGGYTRYTWGTDCCYTCYCATGCTTAY +AAATTTGARAARGATTATGAAATGATGGARTTTTATTTYAATAGAGGTGGWACTTAYTAY +TCAATYTCWGCWGGHAATGTTGTBATTCAATCTTTRGATGTKGGRTTYCARGATGTKGTT +YTRATGAARGTKCCYACAATTCCHAARTTTAGAGAYATWACHSARCATTTTATYAARAAR +RGDGATGTRCCTAGAGCYTTGAATMGBYTGGCAACAYTDGTRACAACHGTWAATGGRACY +CCWATGTTAATTTCWGAGGGHCCWYTVAARATGGARGARAARGCYACYTATGTTCAYAAR +AARAATGATGGWACHACHRTWGAYTTRACTGTDGAYCARGCMTGGAGRGGWAAAGGHGAR +GGTCTYCCWGGRATGTGYGGTGGSGCCYTRRTDWCWTCVAATCARTCYATMCARAATGCM +ATHTTRGGHATYCATGTTGCYGGWGGAAATTCAATTYTDGTKGCDAARTTRGTDACYCAA +GAAATGTTYCAAAAYATWGAYAAGAAAANTTGAAAGTCAGAGAATWATGAAAGTGGARTT +TACTCAGTGTTCAATGAATGTRGTCTCCAAAACGCTTTTTARAAAGAGYCCMATTYATCA +YCACATTGAYAAAAMCATGATTAATTTTCCTGCWGYKATGCCYTTTTCWARRGCWGAART +WGATCCMATGGCWRTRATGYTRTCHAARTATTCWYTWCCTATKGTDGAWGARCCAGAKGR +YTAYAARGADGYTTCWRTYTTTTWYCAAAAYAAAATWKTRGGYAAGRSTCMKYTRGTTGA +TGAYTTTYTRGATMTTGAWATGGCYATWACWGGGGCYCCWGGHATWGATGCHATYAAYAT +GGAYTCWTCYCCTGGRTWTCCTTATGTYCARGARARRTTRACYAAAAGAGATTTRATTTG +GYTKGAYGADAATGGWWTRYTKYTRGGDRTKCATCCWMGRYTGGCHCARAGAATYTTATT +YAAYACWRYHATGATGGAAAATTGTTCWGAYYTRGATGTTGTTTTYACWACYTGTCCMAA +RGATGARTTRAGACCWYTRGAVAAAGTKTTRGAATCWAAAACWAGRGCWATTGATKCTTG +YCCYYTKGAYTAYACAATTYTRTGYMGRATGTAYTGGGGTCCAGCYATTAGTTATTTYCA +YYTRAATCCWGGDTTYCAYACWGGTGTTGCWATWGGMATWGATCCTGAYARACARTGGGA +YSAAYTWTTYAAAACAATGATWAGATNTYGGRGATGTTGGTCTWGAYTTRGNAYTTYTCY +GCYTTTGATGCYAGTCTYAGTCCATTTATGATWAGRGARGCDGGWAGAATYMTSASTGAR +HTRTCTGGARCNCCWKYYCATTTTGGMRMRGCYCTYATYAAYACHATYATTTATTCYAAR +CAYYTRYTKTAYAAYTGTTGTTAYCAYGNTBTRTGGKTCAANTGCCHTCTGGGTCTCCTT +GYACAGCTTTGYTRAATTCAATTATHAAYAAYRTYAAYTTGTATTATGTKTTTTCYAARA +TWTTTRRAAAGTCTCCAGTTTTCTTTTGTSADGCYBTGARRATYCTYTGTTAYGGAGATG +ATGTYYTDATWGTYTTYTCYMGASAKGTYCARATTGAYAAYCTKGAYYYDATTGGACARA +RAATTGTDGATGAGTTYAARAARYTBGGHATGACAGCYACTTCWGCTGAYAARWMTGTDC +CBCARYTGAARCCAGTYTCDGARTTRACWTTTCTHAARAGRTCTTTYAATYTRGTDGARG +AYAGRATYAGRCCTGCWATTKCDGARAARACMATWTGGTCWTTRRTWGCHTGGCARAGAA +GYAAYGCTGARTTTGARCARAATYTRGARAAYGCYCAGTGGTTTGCTTTTATGCATGGHT +ATGARTTYTAYCARMAATTYTATYATTTTGTTCAGTCCTGYTTGGAGAAANNGARATGAT +AGAATAYAGRCTTAAATCWTATGATTGGTGGAGAATGARRTTTWNN diff --git a/primerschemes/varvamp-hav/1000/v1.0.0/work/Overview.png b/primerschemes/varvamp-hav/1000/v1.0.0/work/Overview.png new file mode 100644 index 0000000..d49f85c Binary files /dev/null and b/primerschemes/varvamp-hav/1000/v1.0.0/work/Overview.png differ diff --git a/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/README.md b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/README.md new file mode 100644 index 0000000..133a36b --- /dev/null +++ b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/README.md @@ -0,0 +1,63 @@ +# varvamp-hev3-ch1-m-i-uc-l 1000bp v1.0.0 + +[primalscheme labs](https://labs.primalscheme.com/detail/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0) + +## Description + +Pan-specfic primer scheme for HEV genotype 3 ch1, m, i, uc, l designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates. + +## Overviews + +![overview.png](work/overview.png) + +## Details + +```json +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-hev3-ch1-m-i-uc-l", + "primer_bed_md5": "60db2382ac7114153c6bc93acdb5f70d", + "reference_fasta_md5": "cb7e70c64382a1a8434ab3923a6265c9", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.2", + "species": [ + 291484 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "CLINICAL-ISOLATES", + "COMMUNITY", + "WHOLE-GENOME" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/HEV_2" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for HEV genotype 3 ch1, m, i, uc, l designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) \ No newline at end of file diff --git a/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/info.json b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/info.json new file mode 100644 index 0000000..48a4c1c --- /dev/null +++ b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/info.json @@ -0,0 +1,39 @@ +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-hev3-ch1-m-i-uc-l", + "primer_bed_md5": "60db2382ac7114153c6bc93acdb5f70d", + "reference_fasta_md5": "cb7e70c64382a1a8434ab3923a6265c9", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.2", + "species": [ + 291484 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "CLINICAL-ISOLATES", + "COMMUNITY", + "WHOLE-GENOME" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/HEV_2" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for HEV genotype 3 ch1, m, i, uc, l designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} \ No newline at end of file diff --git a/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/primer.bed b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/primer.bed new file mode 100644 index 0000000..19bf854 --- /dev/null +++ b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/primer.bed @@ -0,0 +1,12 @@ +ambiguous_consensus 25 47 hev3ch1miucl_0_LEFT_1 0 + AGGCTCCTGGCATYACTACTGC +ambiguous_consensus 1422 1442 hev3ch1miucl_0_RIGHT_1 0 - TCCTGYCCYARCCACTTCAT +ambiguous_consensus 2514 2534 hev3ch1miucl_1_LEFT_1 0 + TAYCARCGYTACCCYGAGTC +ambiguous_consensus 3899 3921 hev3ch1miucl_1_RIGHT_1 0 - CCGTGAGYTCRAARACCARCAC +ambiguous_consensus 4804 4825 hev3ch1miucl_2_LEFT_1 0 + YGGGYTGTATGCYGGYGTGGT +ambiguous_consensus 5965 5986 hev3ch1miucl_2_RIGHT_1 0 - ARGTRGCCTCCTCYTCRGCCA +ambiguous_consensus 1299 1319 hev3ch1miucl_3_LEFT_1 1 + CAGTGYCGCCGYTGGYTATC +ambiguous_consensus 2644 2665 hev3ch1miucl_3_RIGHT_1 1 - GRTAYGCYGCCTCRAGCCTCT +ambiguous_consensus 3570 3591 hev3ch1miucl_4_LEFT_1 1 + CACTYACCCGYCAYACAGAGA +ambiguous_consensus 4958 4980 hev3ch1miucl_4_RIGHT_1 1 - CACAHACCTGCGCMACATTCGT +ambiguous_consensus 5752 5771 hev3ch1miucl_5_LEFT_1 1 + GSCCRYTGGTGCCDAATGC +ambiguous_consensus 7075 7094 hev3ch1miucl_5_RIGHT_1 1 - TGRAARGCRCAHCCCTGCA diff --git a/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/reference.fasta b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/reference.fasta new file mode 100644 index 0000000..7ec6394 --- /dev/null +++ b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/reference.fasta @@ -0,0 +1,120 @@ +>ambiguous_consensus +NNNATGGAGGCCCAYCAGTTYATTAAGGCTCCTGGCATYACTACTGCCATTGAGCAAGCT +GCTCTGGCYGCGGCCAAYTCTGCCYTGGCGAATGCTGTGGTGGTTCGGCCGTTTYTWTCY +CGTGTRCARACYGAGATTCTTATYAATTTGATGCAACCCCGGCARYTGGTYTTYCGDCCT +GARGTRCTYTGGAAYCAYCCYATYCAACGKGTTATHCAYAATGARYTDGARCAGTACTGY +CGGGCYCGGGCYGGYCGYTGYYTRGARRTYGGRGCCCAYCCRAGRTCHATYAATGAYAAY +CCNAATGTYYTRCAYCGSTGYTTYYTRCGRCCRGTYGGBAGRGAYGTYCAGCGYTGGTAY +TCYGCYCCYACCCGYGGCCCYGCGGCYAAYTGYCGCCGBTCYGCBYTRCGYGGYCTYCCM +CCYGYYGAYCGYACYTAYTGYTTTGAYGGRTTYTCYCGYTGYBCDTTYGCYGCRGARACY +GGBGTDGCYCTYTAYTCHYTGCATGAYCTYTGGCCGGCYGATGTYGCRGAGGCYATGGCY +CGRCAYGGGATGACACGYYTRTAYGCYGCACTACAYCTYCCYCCYGARGTRYTRYTRCCA +CCHGGYACYTAYCAYACAACYTCRTAYCTYYTDATYCAYGAYGGYRAYCGYGCYGTTGTR +ACYTAYGARGGYGAYACTAGTGCRGGYTAYAAYCATGATGTYTCYATACTYCGYGCRTGG +ATCCGCACRACYAARATAGTYGGYGAYCAYCCGYTGGTGATAGARCGTGTGCGGGCYATY +GGYTGYCAYTTTGTRYTGYTGCTYACYGCRGCYCCTGAGCCGTCRCCHATGCCWTAYGTY +CCRTACCCYCGRTCRACAGAGGTGTAYGTYCGYTCYATATTYGGYCCYGGYGGDTCYCCR +TCYYTRTTYCCRTCWGCTTGCTCYACVAAATCYACATTYCAYGCYGTCCCRGTYCAYATY +TGGGAYCGGCTYATGCTYTTTGGYGCYACYYTRGAYGAYCAGGCRTTYTGYTGYTCRCGG +CTYATGACYTAYCTYCGYGGGATYAGYTACAAGGTYACYGTHGGYGCCCTYGTYGCYAAY +GARGGDTGGAAYGCYTCDGARGAYGCYCTYACYGCTGTYATYACYGCRGCGTAYYTGACY +ATYTGYCAYCAGCGYTACCTCCGYACHCARGCBATATCYAARGGYATGCGYCGRYTGGAG +GTTGARCAYGCYCARAAATTYATYACRAGRCTYTAYAGYTGGYTRTTYGARAARTCYGGC +CGYGAYTAYATYCCYGGYCGYCARCTYCARTTYTAYGCACAGTGYCGCCGYTGGYTATCD +GCRGGYTTYCAYCTYGAYCCDAGGGTGCTYGTYTTYGATGAGTCHGYKCCCTGCCGYTGY +AGGACRTTYCTYAAGAARGYHGYRGGHAARTTYTGYTGYTTYATGAAGTGGYTRGGRCAG +GARTGYACYTGYTTYYTGGARCCRGCHGARGGYCTRGTYGGYGAYCRHGGYCAYGAYAAT +GARGCYTAYGAGGGYTCHGAGGTYGAYCAGGCYGARCCYGCMCAYCTYGAYGTYTCKGGG +ACYTAYGCYGTYCAYGGSMGYCARCTYGARGCYYTGTAYAGGGCRCTTAAYATCCCDCAY +GAYATYGCYGCYCGRGCVTCYCGYYTRACBGCCACYGTYGARCTYRYYGCRRGYCCRGAY +CGYYTRGAGTGYCGYACTRTRCTHGGGAAYAAGACYTTYMGRACRACGGTGGTYGAYGGY +GCYCAYCTYGARGCVAAYGGCCCYGAGCAGTAYGTYCTYTCRTTYGAYGCYTCYYGYCAG +TCYATGGGGGCYGGKYCGCAYARYCTYWCYTAYGAGCTHACYCCYGCYGGYYTGCARGTB +AAGATYTCRTCYAAYGGYYTRGAYTGYACYGCRACRTTYCCYCCRGGYGGVGCYCCYAGY +GCHGMNCCRGGKGANGGTDGCVGCYTNTYTGCAGYGCYCTYTAYAGGTAYAAYAGRTTYA +CYCAGMGVCAYTCGCTKAYRGGYGGYYTRTGGYTRCAYCCYGAGGGGYTRYTRGGYATYT +TYCCYCCYTTYTCYCCYGGRCAYMTYTGGGAGTCYGCYAAYCCYTTYTGYGGRGAGGGRA +CYYTRTAYACYCGRACWTGGTCWACATCWGGYTTYTCTAGTGAYTTYTCYCCCCCBGARG +CRGCYGYYBCWRYRCCGGCYGCYRYYHYRGGGYYRYBYCNNRYCCYACNNAMCYCCYGYY +AGTGANNYATNNYYGGGTGYTRCCRCCRCCYTCYGARGRNNRYYYCAGGYYGAYNNRCRR +YRCCYRYYYCYYYHRYYCYYGAGCYYGYYCDRYYRYCYRGSCCYGYYRRRCCDRRRRNSY +CCYGTGYGTAAGCCRYCRRCRCCRCCRYCYYMKCGYACYCGCCGYCTYCTYTAYACYTAY +CCRGAYGGBGCNNAAGGTGTAYGCRGGGNTCAYTGTTYGAGTCDGAYTGTGAYTGGCTNG +GTYAATGCRTCRAAYCCYGGYCAYCGYCCYGGVGGYGGBCTYTGYCAYGCYTTYTAYCAR +CGYTACCCYGAGTCBTTYYAYCCRACYGAGTTYATYATGCGYGAYGGYCTYGCYGCRTAY +ACYYTRACYCCYCGSCCYATYATYCAYGCRGTGGCYCCYGAYTAYAGGGTYGAGCAKAAY +CCRAAGAGGCTYGAGGCRGCRTAYCGRGAGACYTGYTCYCGYCGYGGYACYGCYGCYTAY +CCRCTYYTHGGYTCRGGYATWTAYCRRGTYCCYGTYRGCCTYAGYTTTGAYGCYTGGGAG +CGYAAYCAYCGCCCYGGKGAYGAGCTYTAYYTRACYGAYCYYGCHGCYRCCTGGTTYGAG +GCYAAYAAGCCVRCRCARCCRGCYCTYACRATAACWGARGAYRCRGCYCGYACRGCYAAC +YTRGCAYTRGAGATYGAYGCYGCYACDGAGGTYGGCCGKGCYTGYGCYGGYTGYRCRGTT +AGYCCYGGGRTTGNTRCAYTNAYCARTTYACYGCYGGSGTYCCRGGYTCRGGRAARTCDM +GDTCYATACAGCARGGGGAYGTYGAYGTRGTKGTTGTYCCYACYCGRGAGCTYCGBAAYA +GYTGGCGYCGCCGRGGYTTYGCRGCYTTYACRCCYCAYACGGCRGCYCGYGTYACYMYGG +GYCGYCGYGTYGTKATTGAYGARGCCCCRTCYCTYCCRCCRCAYYTVYTGYTDYTDCAYA +TGCAGCGGGCYTCGTCRGTYCAYCTYCTYGGYGACCCRAAYCAGATYCCYGCYATAGAYT +TYGAGCAYGCYGGYYTGGTCCCYGCWATACGYCCYGAGCTYGCRCCYACCAGYTGGTGGC +ATGTYACHCAYCGYTGYCCYGCYGAYGTRTGYGAGCTYATMCGYGGRGCYTAYCCBAARA +TYCARACYACKAGYCGYGTRYTRCGRTCYYTATTYTGGAATGARCCYGCYAYYGGSCARA +ARYTRGTYTTYACVCAGGCYGCYAAGGCYGCYAACCCYGGTGCRATYACAGTYCAYGAGG +CCCAGGGYGCCACYTTYACRGARACYACARTYATAGCYACRGCYGAYGCYAGGGGSCTYA +TYCARTCHTCYMGRGCYCAYGCYATAGTYGCACTYACCCGYCAYACAGAGAAGTGCGTYA +THYTDGAYGCCCCYGGYYTGYTRCGYGARGTYGGYATATCDGAYRTRATTGTYAAYAAYT +TYTTYCTYGCYGGYGGRGARGTRGGYCAYCAYCGCCCCTCTGTGATACCYCGYGGYARYC +CYGRYCAGAAYCTYGMGACRYTRCAGGCYTTYCCRCCYTCYTGYCAGATYAGYGCYTAYC +AYCARYTAGCYGAGGARYTDGGYCAYCGHCCRGCYCCYGTYGCYGCBGTYYTGCCYCCYT +GCCCYGARCTYGAGCARGGYYTRYTRTAYATGCCDCARGAGCTYACRGTGTCYGAYAGYG +TGYTGGTYTTYGARCTCACGGAYATAGTYCAYTGCCGBATGGCYGCYCCYAGYCAGCGGA +AGGCYGTYYTRTCBACRCTYGTRGGKAGGTAYGGYCGYMGRACDAAGYTGTAYGARGCVG +CYCAYTCYGAYGTYCGYGAGTCYYTDRCHAGRTTYATYCCYACYATYGGRCCYGTYCAGG +CHACYACRTGTGARYTRTAYGARYTGGTYGAGGCYATGGTRGABAARGGYCAGGAYGGYT +CYGCYGTRYTDGAGCTYGAYCTYTGYAAYCGYGAYGTMTCGCGYATYACATTYTTCCARA +ARGAYTGYAAYAARTTYACYACMGGBGAGACCATYGCYCAYGGYAARGTYGGYCAGGGYA +TYTCRGCYTGGAGYAAGACCTTYTGYGCCCTSTTYGGYCCKTGGTTYCGTGCYATYGARA +AAGARATAYTRGCYCTRCTCCCRCCYAAYATYTTYTAYGGYGAYGCHTAYGARGAGTCTG +TGTTYGCYGCYGCYGTBTCNGGGGCRGGNWCRWGYATGGTRTTTGAGAATGAYTTYTCRG +AGTTTGAYAGYACYCARAAYAAYTTYTCYCTYGGYCTYGAGTGTGTRRTYATGGAGGART +GYGGYATGCCYCAGTGGYTRATYCGGYTGTACCAYYTGGTYMGGTCDGCCTGGATYYTRC +AGGCRCCGAAGGAGTCYCTTAARGGNTTYTGGAAGAAGCAYTCTGGYGAGCCYGGYACCC +TBCTYTGGAAYACYRTYTGGAAYATGGCRATCATAGCRCAYTGCTATGARTTYCGYGATY +TYAGGGTYGCYGCYTTYAAGGGHGATGAYTCVGTGGTYCTYTGYAGYGACTAYCGYCARA +GCCGYAAYGCDGCRGCYYTGATYGCWGGYTGYGGGCTYAARYTRAAGGTTGAYTAYCGCC +CYATYGGGYTGTATGCYGGYGTGGTGGTRGCCCCYGGYYTGGGGACRCTRCCYGATGTRG +TGCGYTTTGCYGGYCGGCTKTCYGAGAAGAACTGGGGCCCYGGBCCVGAGCGGGCYGAGC +ARYTGCGYCTHGCDGTTTGTGAYTTYCTTCGAGGGYTRACGAATGTKGCGCAGGTDTGTG +TYGATGTTGTRTCYCGWGTYTAYGGRGTTAGCCCTGGGYTGGTACATAACCTYATYGGYA +TGYTGCARACYATWGCTGAYGGYAARGCYCAYTTYACAGAGACTGTYAAACCTGTRCTTG +ACCTYACRAAYTCYATYATACAKCGGRTRGAATGAATAACATGTYTTGTGCATYGCCCAT +GGGATCACCATGYGCCCTAGGGCTGTTYTGTTGYTGYTCYTCGTGCTTYTGCCTATGCTG +CCCGCGCCACCGGCCGGCCAGYCGWCTGGCCGCCGTCGTGGGCGGCGCAGCGGCRGTRCC +GGCRGTGGTTTCTGGGGTGACAGGGTTGATTCTCAGCCCTTCGCCCTCCCCTATATTCAT +CCAACCAACCCCTTYGCCRCCGAYGTCRTWYCRCAAYCCGGGGCTGGAGCTCGCCCTCGA +CAGCCRYCCCGCCCCCTYGGYTCCWCTTGGCGYGAYCAGTCCCAGCGCCCCYCCGYTGYC +YCMCGYCGTCGAYCTGCCCCARCTGGGGCTGCGCCGYTGACYGCYRTRTCRCCDGCYCCY +GAYRCRGCYCCYGTRCCYGATGTYGAYTCKCGYGGYGCYATWYTRCGRCGVCAGTAYAAY +YTRTCYACATCYCCRCTYACRTCATCYGTYGCYTCRGGYACYAATYTRGTYCTWTAYGCY +GCCCCGYTAAAYCCYYTKYTRCCYCTYCAGGAYGGYACYAAYACHCAYATYATGGCYACY +GAGGCRTCYAAYTATGCCCAGTAYCGGGTYGTYCGRGCYACGATYCGYTAYMGSCCRYTG +GTGCCDAATGCYGTYGGYGGYTAYGCAATHTCYATYTCWTTYTGGCCYCARACYACYACY +ACCCCYACRTCTGTKGAYATGAAYTCYATYACYTCYACYGATGTYAGGATYYTRGTYCAR +CCYGGYATYGCYTCYGARYTRGTYATYCCYAGYGARCGYCTCCAYTAYCGYAAYCARGGY +TGGCGYTCTGTKGARACMTCRGGYGTGGCYGARGAGGAGGCYACYTCYGGYYTRGTDATG +CTHTGYATYCATGGYTCYCCYGTYAAYTCYTAYACYAAYACCCCYTAYACYGGGGCRCTY +GGRCTYCTTGAYTTYGCHYTRGARCTTGAGTTTAGGAAYYTRACACCYGGRAAYACYAAY +ACCCGYGTDTCCCGGTAYACAAGYACWGCCCGYCAYCGGCTGCGYCGYGGYGCYGAYGGY +ACYGCYGARCTYACYACYACRGCRGCYACRCGYTTYNATGAAGGACYTRCAYTTYACCGG +YACRAAYGGGGTYGGTGAGGTSGGYCGTGGYATTGCYYTBACAYTSNNTTYAATCTTGCT +GAYACRCTYCTYGGYGGTYTGCCGACAGAATTRATTTCGTCGGCYGGGGGDCARYTRTTY +TAYTCCCGCCCYGTCGTCTCAGCCAATGGCGAGCCGRCTGTYAARYTRTAYACATCTGTD +GAGAAYGCRCAGCARGAYAARGGKATYGCYATYCCRCATGAYATAGAYYTRGGYGAYTCY +CGTGTGGTBATYCARGAYTATGAYAAYCARCAYGAGCAGGAYCGRCCYACCCCYTCRCCY +GCCCCDTCYCGYCCHTTYTCRGTYCTYCGYGCYAATGATGTYYTDTGGCTYTCYCTYACY +GCYGCYGAGTAYGAYCAGACYACATATGGGTCKTCCACCAACCCRATGTATGTCTCRGAY +ACYGTYACATTTGTYAAYGTRGCYACAGGRGCYCAGGCYGTYGCYCGYTCYCTYGAYTGG +TCYAARGTYACYYTRGAYGGCCGYCCYCTYACYACYATYCAGCAGTAYTCYAARACATTY +TATGTYCTCCCGCTYCGYGGGAAGYTRTCYTTYTGGGAGGCYGGBACRACYAARGCYGGY +TAYCCYTATAATTAYAAYACRACTGCTAGTGAYCARATYYTRATTGARAATGCRGCYGGY +CAYCGTGTYGCYATHTCYACBTAYACYACYAGCYTKGGYGCYGGYCCTGTGTCDRTYTCT +GCRGTYGGTGTDYTRGCYCCRCAYTCGGCYCTYGCWRTYCTTGARGAYACTRYTGAYTAY +CCKGCYCGYGCYCAYACTTTYGATGAYTTYTGYCCRGARTGYCGYRCYCTBGGYYTGCAG +GGDTGYGCYTTYCARTCYACYRTYGSTGARYTHCAGBGNN diff --git a/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/work/overview.png b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/work/overview.png new file mode 100644 index 0000000..a0e90cc Binary files /dev/null and b/primerschemes/varvamp-hev3-ch1-m-i-uc-l/1000/v1.0.0/work/overview.png differ diff --git a/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/README.md b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/README.md new file mode 100644 index 0000000..b4aeac4 --- /dev/null +++ b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/README.md @@ -0,0 +1,63 @@ +# varvamp-hev3ef 1000bp v1.0.0 + +[primalscheme labs](https://labs.primalscheme.com/detail/varvamp-hev3ef/1000/v1.0.0) + +## Description + +Pan-specfic primer scheme for HEV genotype 3ef designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates. + +## Overviews + +![overview.png](work/overview.png) + +## Details + +```json +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-hev3ef", + "primer_bed_md5": "7ed3be36ac45b820c325792e32b76efc", + "reference_fasta_md5": "50bf069e781ff4462d495ebd5904b56a", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.2", + "species": [ + 291484 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "COMMUNITY", + "WHOLE-GENOME", + "CLINICAL-ISOLATES" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/HEV_1" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for HEV genotype 3ef designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) diff --git a/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/info.json b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/info.json new file mode 100644 index 0000000..134bba2 --- /dev/null +++ b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/info.json @@ -0,0 +1,39 @@ +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-hev3ef", + "primer_bed_md5": "7ed3be36ac45b820c325792e32b76efc", + "reference_fasta_md5": "50bf069e781ff4462d495ebd5904b56a", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.2", + "species": [ + 291484 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "COMMUNITY", + "WHOLE-GENOME", + "CLINICAL-ISOLATES" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/HEV_1" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for HEV genotype 3ef designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} \ No newline at end of file diff --git a/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/primer.bed b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/primer.bed new file mode 100644 index 0000000..ddda176 --- /dev/null +++ b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/primer.bed @@ -0,0 +1,14 @@ +ambiguous_consensus 26 48 hev3fe_0_LEFT_1 0 + AGGCTCCTGGCATTACTACTGC +ambiguous_consensus 1424 1445 hev3fe_0_RIGHT_1 0 - ACTCCTGSCCYARCCAYTTCA +ambiguous_consensus 2407 2428 hev3fe_1_LEFT_1 0 + CCBGAYGGGGCYAAGGTSTAT +ambiguous_consensus 3849 3871 hev3fe_1_RIGHT_1 0 - ARAGTARVCCCTGCTCRAGCTC +ambiguous_consensus 4309 4331 hev3fe_2_LEFT_1 0 + TCCGYGCYATYGAGAAGGAGAT +ambiguous_consensus 5292 5314 hev3fe_2_RIGHT_1 0 - ATCAACCCTGTCACCCCAGAAA +ambiguous_consensus 5952 5974 hev3fe_3_LEFT_1 0 + TCYGTYGAGACMTCGGGTGTGG +ambiguous_consensus 6987 7010 hev3fe_3_RIGHT_1 0 - TCYTCAAGYACAGCTARRGCAGA +ambiguous_consensus 1244 1266 hev3fe_4_LEFT_1 1 + TRTTTGARAARTCVGGCCGTGA +ambiguous_consensus 2637 2657 hev3fe_4_RIGHT_1 1 - ARCCTCTTVGGRTTYTGCTC +ambiguous_consensus 3285 3305 hev3fe_5_LEFT_1 1 + GCYCCHACYAGYTGGTGGCA +ambiguous_consensus 4593 4613 hev3fe_5_RIGHT_1 1 - TCRCCRGARTGCTTCTTCCA +ambiguous_consensus 4971 4993 hev3fe_6_LEFT_1 1 + GCGCAGGTYTGTGTTGATGTTG +ambiguous_consensus 6336 6357 hev3fe_6_RIGHT_1 1 - YTGRCCTCCRGCCGACGAAAT diff --git a/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/reference.fasta b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/reference.fasta new file mode 100644 index 0000000..1a2f761 --- /dev/null +++ b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/reference.fasta @@ -0,0 +1,119 @@ +>ambiguous_consensus +NNNNATGGAGGCCCAYCAGTTYATTAAGGCTCCTGGCATTACTACTGCCATTGAGCAGGC +TGCTCTGGCWGCGGCYAAYTCYGCCTTGGCGAATGCTGTGGTGGTYCGGCCGTTYYTRTC +YCGTRYYCARACTGABATYCTYATYAAYYTGATGCAACCYCGRCAGCTYGTDTTYCGVCC +YGARGTYYTBTGGAAYCAYCCKATYCAGCGRGTYATWCAYAAYGARYTRGAGCARTAYTG +YCGDGCYCGYGCYGGYCGYTGYCTBGARGTDGGBGCYCAYCCRAGRTCYATYAATGAYAA +YCCYAATGTYYTGCACCGGTGYTTYCTYCGYCCGGTYGGNAGAGAYGTBCAGCGYTGGTA +YTCYGCYCCBACYCGYGGYCCRGCGGCYAAYTGYCGCCGYTCYGCRYTRCGYGGYYTRCC +YCCTGTCGAYCGYACVTAYTGYTTYGAYGGGTTYTCCCGYTGYGCYTTYGCYGCYGAGAC +YGGRATYGCYYTRTAYTCAYTRCATGAYCTYTGGCCYKCGGAYGTYGCRGAGGCYATGGC +YCGYCAYGGGATGACRCGYYTGTAYGCHGYCCTYCAYYTRCCYCCTGARGTYYTRYTACC +ACCTGGHACYTAYCAYACMACYTCYTAYYTBYTGATYCACGAYGGYRAYCGYGCYGTCGT +RACYTAYGAGGGKGAYACYAGTGCRGGYTAYAAYCAYGATGTRTCYATWCTYCGYGCWTG +GATYCGYACMACHAARATAGTYGGYGAYCACCCRYTGGTVATAGAGAGRGTYCGYGCYAT +YGGCTGCCAYTTTGTBYTRCTYCTYACYGCWGCCCCYGARCCRTCYCCDATGCCTTATGT +YCCDTACCCTCGYTCAACRGAGGTRTAYGTYAGRTCYATATTYGGYCCYGGYGGGTCRCC +YTCYCTYTTYCCRTCAGCCTGCTCYACYAARTCYACATTYCAYGCYGTYCCRGTYCAYAT +YTGGGACCGGCTHATGCTYTTYGGYGCCACYYTRGAYGAYCARGCCTTYTGYTGCTCGCG +GCTYATGACYTAYCTCCGYGGRATYAGYTAYAARGTKACYGTYGGYGCACTYGTYGCCAA +CGARGGYTGGAAYGCYTCRGAGGAYGCRCTHACYGCYGTRATYACYGCRGCRTAYYTGAC +YATYTGYCAYCAGCGCTACYTMCGRACHCAGGCYATHTCYAARGGYATGCGYCGRYTAGA +RGTYGAGCAYGCCCARAARTTTATYACWAGRYTWTAYAGYTGGYTRTTTGARAARTCVGG +CCGTGAYTAYATYCCYGGYCGYCARCTYCARTTYTAYGCRCAGTGCCGCCGYTGGCTCTC +DGCYGGHTTYCAYYTRGAYCCYAGRGTYCTYGTYTTYGAYGAGGCRGTYCCYTGYCGHTG +YMGGAGYTTYYTRAAGAARGYYGCYGGVAARTTYTGYTGYTTTATGAARTGGYTRGGSCA +GGAGTGYACYTGYTTYYTGGAGCCRGCDGARGGYYTRRTTGGYGAYTGYGGYCAYGAYAA +YGAGGCYTAYGARGGDTCYGAGGTRGAYCCYGCYGAGCCYGCYCAYCTTGAYRTYTCYGG +GACYTAYGCRGTYCAYGGYCGYCAGCTYGAGGCYCTDTAYAGRGCRYTHAAYATYCCRSA +YGAYATYGCRGCYCGYGCRTCRCGYYTRACRGCYACYGTRGARCTYRCYGCYAGYCCRGG +YMGVCTYGARTGYCGYACRGTGCTYGGRAAYAAGAYYTTYCGYACATCRATAACYGAYGG +YGCYCAYCTYGARGYYAAYGGYCCYGAGCAGTAYGTYYTRACATTTGAYGAYTCYCGYCA +RGYDATGGGRGCYGGRCCHCAYAGYCTYACRTAYGARCTYRYYCCYGCYGGYYTGCARGT +YARRATATCYTCYAATGGCYTRGAYTGYACYGCHRTWTTYCCYCCYGGYGGRGCRCCRAG +YGCHSCRCCRRGYGARGTDGCRGCYTTYTGYAGYGCYYTRTAYAGRTAYAAYAGRTTYAC +YCAGCGYCAYTCRYTRACYGGYGGGYTGTGGYTGCAYCCYGAGGGGCTYYTBGGYYTRTT +YCCYCCYTTYTCYCCNGGGCAYVTYTGGGAGTCYGCRAAYCCYTTYTGYGGYGAGRGYAC +ACTTTAYACHCGRACYTGGTCYNNACATCYGGYTTYTCYAGYGAYTTYTCYCCVCCYGAG +GNNCGGCYHWYGCYGCYMCRGYHCYYGAYRBRGGRYNNYRMCYYCNNRRGYRCYYCYTCN +TCYGYTAGYGRYRTYTGGGYRYTYCCRCCRCCYTCYGAGRGGTCRGYRRYYRYYYYRYYR +CCYRHRRYYYCRGYNNYRGTAANNDCCDRCTARYYYRYCYAGYYYYRYYRYRYMYARRNN +CCYCCYGYYYGYRAGCCRYCYHNNYRCCRCCRYCRRCYNNCGYACYCGYCGGCTYCTYTA +YACHTAYCCBGAYGGGGCYAAGGTSTATGCRGGYTCYYTGTTYGAGTCDGAYTGYKAYTG +NNGYTKGTYAAYGCRTCYAAYCCYGGYCACCGYCCYGGYGGYGGYCTYTGYCAYGCHTTY +TAYCARCGYTTYCCRGAGTCRTTYYAYCCRRCYGAYTTYRTYATGCGYGARGGYCTYGCY +GCRTAYACYYTGASCCCRCGYCCRATYATYCAYGCHGTGGCYCCYGAYTAYAGGGTTGAG +CARAAYCCBAAGAGGYTRGAGGCRGCRTAYCGYGAGACYTGYTCYCGYCTYGGYACAGCY +GCBTAYCCDYTRYTRGGRTCRGGGATYTAYCARGTSCCYGTRRGYYTRAGYTTYGAYGCC +TGGGAGCGYAAYCAYCGYCCRGGYGAYGARCTBTAYCTYACYGAGCCVGCYGCYGCSTGG +TTYGARGCYAATAAGCCDRCYCARCCRGCYYTAACRATYACYGARGAYACYGCYCGYACR +GCYAAYCTYGCRCTYGAGATYGAYTCYGCYACYGAGGTDGGYCGYGCYTGYRCYGGYTGY +ACYRTYARYCCYGGGRTTGTYCAYTAYCAGTTYACYGCYGGGGTHCCYGGYTCYGGGAAR +TCTAGRTCYATACARCARGGRGAYGTBGATGTYGTRGTYGTRCCRACYCGYGAGCTYCGY +AAYAGYTGGCGRCGYCGYGGYTTYGCYGCTTTYACACCYCAYACDGCRGCYCGYGTYACY +GCYGGYCGGCGYGTBGTGATWGAYGARGCRCCYTCKCTYCCRCCRCAYYTRYTRYTGCTY +CAYATGCARCGRGCYTCRTCRGTYCAYCTYCTYGGYGAYCCYAAYCAGATYCCYGCYATY +GAYTTTGAGCAYGCHGGYYTGGTBCCRGCRATYCGYCCYGAGYTHGCYCCHACYAGYTGG +TGGCAYGTYACMCAYCGYTGYCCYGCYGAYGTDTGYGAGCTYATACGYGGRGCYTAYCCH +AAGATYCARACDACYAGCCGYGTGHTGMGRTCYYTRTTYTGGAAYGARCCYGCRRTRGGY +CAGARGYTRGTHTTYACGCAGGCDGCYAARGCVGCYAAYCCYGGYGCAATYACYGTYCAY +GAGGCYCAGGGBGCYACRTTYACDGAGACYACYATYATAGCYACRGCYGAYGCYAGRGGY +CTYATYCARTCYTCYCGYGCRCAYGCHATYGTYGCRCTYACYCGYCAYACAGARAARTGY +GTYATYYTBGAYGCYCCYGGCYTRYTGCGYGAGGTYGGYATYTCWGAYATAATTGTHAAY +AAYTTYTTYYTGGCYGGHGGYGARGTRGGYCAYCAYCGCCCYTCHAYYATMCCBCGHGGY +AAYCCRGAYCRRAAYYTAGAYACYYTVCRRGCDTTYCCYCCRTCYTGYCARATYAGYGCY +TAYCAYCARYTRGCYGARGAGYTGGGYCAYCGRCCRGCCCCDGTRGCYGCYGTHYTRCCB +CCYTGCCCYGAGCTYGAGCAGGGBYTACTYTAYATGCCRCARGARCTYACRGTKTCYGAY +AGYGTYYTRRYYTTYGARCTYACGGAYATAGTYCAYTGYCGHATGGCBGCCCCYAGYCAR +CGKAAGGCVGTYCTYTCDACRCTYGTYGGYAGGTAYGGYCGYCGRACRAAGYTGTAYGAR +GCRGCYCAYTCTGAYGTYCGYGAGTCYYTRGGDAGRTTYATCCCYACYATYGGVCCRGTY +CARGCYACYACRTGYGAGYTRTAYGARYTRGTKGAGGCYATGGTDGAGAAGGGYCAGGAY +GGYTCYGCYGTGYTHGARCTYGAYCTYTGYARYCGHGATGTYTCRCGYATYACRTTYTTY +CAGAARGAYTGYAAYAARTTYACAACRGGYGAGACYATYGCYCAYGGYAAGGTGGGYCAG +GGBATYTCGGCYTGGAGYAARACYTTYTGYGCYYTATTYGGHCCRTGGTTCCGYGCYATY +GAGAAGGAGATYYTRGCYYTRCTYCCRCCYAAYRTYTTYTAYGGYGAYGCYTWYGARGAG +TCRGTGTTYTCTGCRGCYATYTCYGGRGCBGGYTCYAGTATGGTYTTYGAGAAYGAYTTY +TCYGAGTTYGAYAGYACYCAAAAYAAYTTYTCYCTYGGCCTYGARTGYGTYATYATGGAR +GAGTGYGGYATGCCYCARTGGCTYATYCGRYTGTAYCAYYTRGTYAGRTCRGCCTGGAYY +YTGCARGCCCCKAAAGAGTCYYTGAAAGGYTTYTGGAAGAAGCAYTCYGGYGARCCYGGY +ACHCTCCTYTGGAAYACYGTYTGGAAYATGGCDATCATAGCRCAYTGCTATGARTTYCGY +GAYYTGAGRGTGGCRGCGTTYAARGGRGAYGAYTCRGTGGTYCTYTGYAGYGAYTAYCGY +CAGAGCCGYAATGCRGCYRCYYTGATWGCYGGYTGYGGRTTRAARYTGAAGGTTGAYTAY +CGBCCYATAGGBYTGTAYGCYGGYGTYGTRGTRGCYCCRGGYCTYGGKGCRCTYCCYGAY +GTYGTYCGSTTYGCMGGHCGRYTRTCYGAGAAGAAYTGGGGYCCRGGYCCYGARCGYGCY +GARCAGYTRCGYYTRGCRGTYTGTGAYTTYCTYCGARGGYTRACGAATGTYGCGCAGGTY +TGTGTTGATGTTGTGTCYCGYGTYTAYGGGGTTAGYCCYGGGYTGGTRCATAACCTTATY +GGYATGYTRCAGACYATWGCYGAYGGRAAGGCYCAYTTYACYGARACYRTYAARCCYGTR +YTRGAYCTKACRAAYTCYATYATACAGAGGTTRGAATGAATAACATGTYBTGTGCATYGC +CCATGGGATCRCCATGYGCCCTMGGGCTGTTCTGYTGYTGYTCYTCGTGYTTYTGCCTAT +GCTGCCCGCGCCACCGGCCGGCCAGCCGTCTGGCCGCCGTCGTGGGCGGCGCAGCGGCRG +TRCCGGCRGTGGTTTCTGGGGTGACAGGGTTGATTCTCAGCCCTTCGCCCTCCCCTATAT +TCATCCAACCAACCCCTTYGCCKCCGAYGTCKTAYCACAAYCCGGGGCTGGAGCTCGCCC +TMGACARCCGSYCCGCCCCCTYGGCTCCTCYWGGCGYGACCAGTCCCAGCGCCCCYCCGC +YGCCCCCCGYCGTCGATCTRCCCCARCTGGGGCTGCGCCGYTRACYGCYGTYTCHCCDGC +RCCTGAYACRGCYCCRGTYNNCCYGAYGTWGAYTCYCGYGGYGCYATYYTGCGCCGYCAG +TAYAAYYTRTCYACYTCYCCHYTRACYTCVTCTGTYGCYTCYGGVACYAAYCTTGTYYTR +TAYGCYGCYCCRCTYAAYCCYCTYYTRCCYCTYCARGAYGGYACYAAYACYCAYATYATG +GCRACTGARGCRTCYAAYTAYGCYCAGTAYCGRGTYGTYCGGGCYACRATYCGYTAYCGC +CCYYTGGTGCCRAATGCYGTYGGYGGYTAYGCRATHTCWATYTCYTTYTGGCCYCARACY +ACAACYACMCCYACYTCTGTYGAYATGAAYTCYATYACYTCYACTGATGTTAGGATHYTR +GTYCAGCCYGGYATAGCYTCYGARYTKGTYATCCCKAGYGAGCGCCTYCAYTAYCGYAAY +CARGGYTGGCGYTCYGTYGAGACMTCGGGTGTGGCYGAGGAGGAGGCRACATCRGGYYTG +GTYATGCTYTGYATYCATGGYTCYCCYGTYAAYTCYTAYACYAAYACRCCCTAYACYGGG +GCRYTRGGRCTYCTYGAYTTYGCACTYGAGCTTGARTTYAGRAATYTRACCCCYGGGAAC +ACTAACACCCGTGTGTCCCGNTAYACYAGYACRGCYCGDCAYCGYYTRCGYCGYGGYGCY +GAYGGDACDGCYGARCTYACRACYACYGCRGCCACRCGYTTYATGAAGGACYTGCAYTTY +ACYGGGACRAAYGGHGTYGGYGARGTRGGYCGYGGYATAGCYYTRACDYTRTTYAAYCTT +GCTGAYACACTTCTCGGYGGKYTGCCGACAGAATTGATTTCGTCGGCYGGAGGYCARYTV +TTYTACTCCCGYCCRGTYGTCTCRGCCAATGGCGAGCCRACTGTYAARTTATAYACYTCY +GTCGAGAATGCRCAGCAGGAYAAGGGYATTGCYATACCRCAYGAYATAGAYYTRGGRGAY +TCYCGYGTGGTYATHCARGAYTAYGAYAAYCARCATGARCARGAYMGGCCYACCCCDTCR +CCRGCCCCRTCYCGYCCYTTYTCRGTCCTYCGDGCYAATGATGTYYTGTGGCTYTCYYTD +ACYGCDGCYGARTAYGAYCARACYACYTAYGGYTCRTCDACYAAYCCYATGTATGTYTCA +GAYACWGTYACWYTTGTYAATGTGGCBACRGGHGCYCAGGCYGTYGCYCGHTCYCTTGAY +TGGTCYAAGGTYACYYTRGAYGGYCGRCCWCTYACYACYATHCAGCAGTAYTCYAAGACA +TTYTATGTRYTSCCRCTYCGYGGBAAGCTYTCYTTYTGGGARGCYGGYACDACYAAGGCY +GGBTAYCCYTAYAAYTAYAAYACYACTGCTAGTGAYCAGATYYTGATHGAGAATGCAGCY +GGYCAYCGYGTYGCYATMTCYACYTAYACYACTAGYCTYGGYGCYGGYCCWGTRTCHGTY +TCYGCRGTYGGYGTYCTYGCYCCRCAYTCTGCYYTAGCTGTRCTTGARGAYACYATYGAY +TAYCCYGCYCGYGCYCAYACTTTYGATGAYYNN diff --git a/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/work/overview.png b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/work/overview.png new file mode 100644 index 0000000..46b476c Binary files /dev/null and b/primerschemes/varvamp-hev3-e-f/1000/v1.0.0/work/overview.png differ diff --git a/primerschemes/varvamp-polio/1000/v1.0.0/README.md b/primerschemes/varvamp-polio/1000/v1.0.0/README.md new file mode 100644 index 0000000..243e141 --- /dev/null +++ b/primerschemes/varvamp-polio/1000/v1.0.0/README.md @@ -0,0 +1,65 @@ +# varvamp-polio 1000bp v1.0.0 + +[primalscheme labs](https://labs.primalscheme.com/detail/varvamp-polio/1000/v1.0.0) + +## Description + +Pan-specfic primer scheme for poliovirus designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates. + +## Overviews + +![overview.png](work/overview.png) + +## Details + +```json +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-polio", + "primer_bed_md5": "125e57bfa2b84a08ad412b46ba903acf", + "reference_fasta_md5": "8db764b16699f75eb7cb438ed7224c0b", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8", + "species": [ + 12080, + 12083, + 12086 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "CLINICAL-ISOLATES", + "WHOLE-GENOME", + "COMMUNITY" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/Polio" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for poliovirus designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) diff --git a/primerschemes/varvamp-polio/1000/v1.0.0/info.json b/primerschemes/varvamp-polio/1000/v1.0.0/info.json new file mode 100644 index 0000000..226ed41 --- /dev/null +++ b/primerschemes/varvamp-polio/1000/v1.0.0/info.json @@ -0,0 +1,41 @@ +{ + "ampliconsize": 1000, + "schemeversion": "v1.0.0", + "schemename": "varvamp-polio", + "primer_bed_md5": "125e57bfa2b84a08ad412b46ba903acf", + "reference_fasta_md5": "8db764b16699f75eb7cb438ed7224c0b", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8", + "species": [ + 12080, + 12083, + 12086 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "CLINICAL-ISOLATES", + "WHOLE-GENOME", + "COMMUNITY" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/Polio" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for poliovirus designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} \ No newline at end of file diff --git a/primerschemes/varvamp-polio/1000/v1.0.0/primer.bed b/primerschemes/varvamp-polio/1000/v1.0.0/primer.bed new file mode 100644 index 0000000..aaa2885 --- /dev/null +++ b/primerschemes/varvamp-polio/1000/v1.0.0/primer.bed @@ -0,0 +1,14 @@ +ambiguous_consensus 22 46 PV_0_LEFT_1 0 + CYTTGTRCGCCTGTTTTATACTCC +ambiguous_consensus 1141 1162 PV_0_RIGHT_1 0 - GGYARYTTCCACCACCASCCT +ambiguous_consensus 2086 2106 PV_1_LEFT_1 0 + TTYTGYGGHTCMATGATGGC +ambiguous_consensus 3439 3463 PV_1_RIGHT_1 0 - YVACYAAGAGGTCTCTRTTCCACA +ambiguous_consensus 4423 4445 PV_2_LEFT_1 0 + GCAARCACCGTATTGARCCAGT +ambiguous_consensus 5730 5754 PV_2_RIGHT_1 0 - GTCACAGCACCRACRGGRACATAC +ambiguous_consensus 6346 6368 PV_3_LEFT_1 0 + ACYAGAGACACYAARGARATGC +ambiguous_consensus 7337 7360 PV_3_RIGHT_1 0 - ACCCAATCCAATTCGACTGAGGT +ambiguous_consensus 851 871 PV_4_LEFT_1 1 + GAYCCDTCMAARTTCACCGA +ambiguous_consensus 2221 2244 PV_4_RIGHT_1 1 - CTRATCCAHGGYACYACCATAGT +ambiguous_consensus 3160 3183 PV_5_LEFT_1 1 + TMGHGTDGTMAATGATCACAACC +ambiguous_consensus 4528 4550 PV_5_RIGHT_1 1 - GGYAGYGAGTANGTGGAVGTGT +ambiguous_consensus 5502 5521 PV_6_LEFT_1 1 + TRCCAACHCAYGCHTCACC +ambiguous_consensus 6631 6653 PV_6_RIGHT_1 1 - AHCCKGTGTARTCAAADGCAAA diff --git a/primerschemes/varvamp-polio/1000/v1.0.0/reference.fasta b/primerschemes/varvamp-polio/1000/v1.0.0/reference.fasta new file mode 100644 index 0000000..5965cdb --- /dev/null +++ b/primerschemes/varvamp-polio/1000/v1.0.0/reference.fasta @@ -0,0 +1,124 @@ +>ambiguous_consensus +NNNYACWCYGGTATYRCGGTACCYTTGTRCGCCTGTTTTATACTCCCNCYNCNGYAACNT +TAGAMGCAYRNMAANYCAAGYTCAATAGRAGGGGGTRCAARCCAGYRCCWCYRYGRRCAA +GCACTWCTGTTTCCCCGGTGABRYYGYATAGACTGYTYVCRYGGTTGAAAGYGWYSGATC +CGTTAYCCGCTYRTGTACTTCGARAAGCCYAGTAYCRCYYYGGAATCTTCGAYGCGTTGC +GCTCAGCACYCRACCCCRGRGTGTAGCTTRGGCYGATGAGTCTGGACAKYCCYCACYGGY +GACRGTGGTCCAGGCTGCGYTGGCGGCCYACCTRTGGNCYNAAMGCCAYRGGACGYTAGW +TGTGAACARGGTGTGAAGAGCCTATTGAGCTACATRAGARTCCTCCGGCCCCTGAATGCG +GCTAATCCYAACCWYGGRRCAGGYRGNYYRCRAMCCAGYRRYYRGCYTGTCGTAACGCGC +AAGTCYGTGGCGGAACCGACTACTTTGGGTGTCCGTGTTTCCTKNTTANTNTYTWNKHRT +GGCTGCTTATGGTGACAATCABAGATTGTTATCATAAAGCGARTTGGATTGGCCATCCRG +TGWRWRTBRKRTYMRDTAYHYMHYTGTTTGYTGGAWYCRCTSYNNYRRVWBKDYTTMYYM +YWWRWMYWATTNDMAAYWRTWNYKWVRAYMRRAYWWYNWRTRYYAYAATGGGHGCYCARG +TWTCATCMCARAAAGTDGGMGCHCAYGARAAYTCWAAYMGAGCSTAYGGYGGKTCYACSA +TYAAYTACACYACMATYAATTAYTATARRGAYTCHGCWAGYAAYGCRGCDWSSAARCARG +AYTWYKCWCARGAYCCDTCMAARTTCACCGARCCMMTHAAGGAYGTSCTBATWAARACMK +CYCCMRYRCTMAAYTCVCCAAAYRTDGARGCKTGYGGKTAYAGYGAYAGRGTRHTGCARY +TMACWYTRGGMAAYTCMACKATHACYACMCARGARGCRGCHAATTCWGTWGTBGCYTAYG +GDMGWTGGCCTGARTWYMTBAGRGAYRVCGARGCMAAYCCDGTRGACCARCCRACHGARC +CMGAYGTVGCYRCRTGCAGRTTYTAYACRYTAGAYACYGTVWYKTGGVSBAARGAGTCSM +RAGGSTGGTGGTGGAARYTRCCWGAYGCWYTRMRRGACATGGGDYTVTTTGGHCAAAAYA +TGTWYTAYCACTAYCTWGGDAGRKCYGGSTACACHGTGCAYGTRCAGTGYAAYGCHTCMA +ARTTYCAYCARGGDGCWCTMGGGGTRTTYGCVRTWCCWGARWWKTGTYTRGCBGGKGAYA +GYRMNNMAMKMMMAKGYWCACHARBTAYSMRAATGCSAATCCWGGYGARARAGGRGGHRM +WTTYWMVKSBMVDTTCAMYMHKGAYRMCRMMSHVACWWMMCCWRMMMGDRRSTTCTGCCC +RGTKGATTAYCTCYTBGGRWRTGGVRYGYTRBTRGGRAATGCMTTTGTDTWYCCRCAYCA +RATMATWAAYCTRMGSACYAACAACWGYGCWACDMTDGTMYTVCCHTAYGTRAAYKCHYT +SKCVATWGATWSHATGRYWAARCACAAYAAYTGGGGVATYGCHATHYTVCCMYTRKCVCC +RYTRRAYTTTGCYMVWGADTCHTCMVYWGARATWCCMATYACHBTGACMATWGCYCCHAT +GTGYWGYGARTTCAAYGGHYTDMGMAACRTBACYSYRCCWMRMWYHCARGGVYTRCCRGT +SHTGAACACYCCWGGKAGYAAYCARTAYCTKACBKCAGACAAYYWCCARTCWCCRTGYGC +RMTVCCWGARTTTGATGTSACYCCRCCYATWGAYATMCCMGGKGARGTKMRVAACATGAT +GGARYTSGCVGARATMGACACCATGATWCCYYTYRAYTTRRVDRSHMMMMRVARRAACAC +MATGGAMATGTAYAGRGTYVVKYTRAGYGACAVDSCHSAYHYWKMSVMDCCVATHYTSTG +YYTSTCRYTVTCYCCMGCWTYWGAYCCBMGVTTGKCACAYACYATGYTKGGDGARRTMYT +RAAYTAYTAYACWCAYTGGGCMGGRTCCYTGAARTTYACSTTYCTSTTYTGYGGHTCMAT +GATGGCHACBGGVAARHTVYTRGTKKCHTAYGCRCCWCCHGGWGCMSAVSCMCCMAMSAR +BCGYAARGARGCDATGYTKGGVACACATGTSATHTGGGAYMTWGGVYTGCARTCHTCWTG +YACTATGGTRGTRCCDTGGATYAGYAAYRYSACRTAYMGRCARACYAYMVAHGATAGTTT +CACHGARGGYGGMTAYATYAGCRTSTTCTAYCAAACHAGRRTWGTBGTSCCDYTKTCSAC +MCCYARRRRKATGRRCATSCTKGGKTTTGTGTCAGCBTGYAATGAYTTCAGYGTGCGMTT +RMTGCGAGAYACMACWCAYATHDVDCAADMDGCKMTDSCACARGGDWNNTTGARRRBDYS +RTTKMHRRVRYWRYHMRDRRHRCVBTRRBKBYSBCRMYBYCBAVNNVRAYRSYYTVCCWR +AYACWRARSCSAGYGGHCCRGCVCAYTCCAAGGARRTWCCKGCAYTSACHGCMGTSGARA +CWGGRGCYACMAATCCDYTRGYVCCWTCBGAYACMGTKCAAACSMGMCAYGTHRTMCARM +RWMGVWSVMGRTCAGAGTCYASVRTWGARTCWTTCTTYGCRMGVGGKGCDTGCGTSGCYA +TYATDRMSGTGGAYAAYKMWSMWYCVACMAMSMRBRMVVRBARRYTRTTTDCVRTKTGGM +RVATHACWTAYAAAGATACWGTBCARYTRMGVMGBAARYTGGARTTYTTCACMTAYTCKM +GWTTTGAYATGGARTTYACYTTYGTGGTHACYKCMAAYTWCRYYRABRCWAAYAAYGGRC +ATGCMYTVAAYCARGTKTAYCARATWATGTAYRTMCCMCCMGGVGCWCCHRYVCCHRRKW +MATGGRAYGACTAYACDTGGCARACVTCHTCHAAYCCRTCVRTVTTTTACACCTAYGGRR +CDSCYCCRGCVMGRATMTCRGTRCCVTAYGTKGGDWTWKCBAAYGCBTAYTCVCACTTTT +AYGAYGGBTTYKCMAARGTRCCAYTRRMGRNRYCARKSVBCARMNWWGGYGAYTCSYTST +AYRGYGCHRYVWCWSTDRATGAYTTYGGWDYWYTGGCWGTTMGHGTDGTMAATGATCACA +ACCCSACBMRRSTMACCTCCAARRTCMGMRTKTAYMTRAARCCMAARCAYRTMMGWGTCT +GGTGCCCDMGWCCDCCRMGVGCRGTVSCDTAYTWYGGMCCWGGDGTKGAYTAYARRRAYR +RBNYTBRMMCCMYTMYCHRMVAARGRWYTRACSACWTATGGMTTYGGRCAYCARAAYAAA +GCKGTGTACACWGCWGGYTACAARATYTGCAAYTACCAYYTVGCYACWMARGARGAYTTR +CAAAAYGCHGTRARYRTCATGTGGAAYAGAGACCTCTTRGTBRYWGAATCRARRGCYCWD +GGYACYGAYTCRATMGCAAGGTGCARYTGYAAYRCRGGKGTGTACTAYTGYGARTCYAGR +AGRAAATAYTAYCCWGTDTCBTTYRTKGGVCCMACSTTCCARTACATGGARGCYAATRAM +TAYTACCCRGCTAGRTAYCARTCMCAYATGYTHATYGGBCAYGGVTTYGCMTCWCCRGGD +GAYTGTGGTGGYATMCTYAGRTGYCAMCAYGGVGTSATMGGRATMRTBACWGCTGGTGGR +GARGGVYTRGTYGCATTYWCWGACATWAGRGACYTGTATGCYTAYGARGARGARGCYATG +GARCARGGMATYWCMAAYTAYATHGAGTCMCTYGGDGCYGCRTTYGGWAGTGGRTTYACY +CARCARATWGGDGAYAARRTWWCMGARYTRACYARYATGGTVACYAGYACSATYACWGAR +AARYTRCTKAARAACYTRATMAARATYATHTCMTCHCTDGTBATYATHACYAGRAATTAY +GARGAYACYACMACAGTGCTBGCYACYCTVGCHCTYCTYGGKTGYGAYRYBTCMCCRTGG +CARTGGCTDARRAAGAARGCATGYGAYRYYYTKGARATWCCHTAYGYYAYBMRRCARGGW +GAYAGYTGGTTGAARAARTTYACWGARGCRTGYAAYGCWGCHAARGGDYTRGARTGGGTG +TCMAAYAARATMTCMAAATTYATTRRYTGGYTVMRRGADARRATYATYCCACAAGCBAGR +GAYAARYTDGARTTTGTMACHAARYTDARRCARYTRGARATGCTDGARAAYCARATHKCM +ACHATMCACCARTCDTGYCCWAGTCARGAACAYCARGARATYYTRTTYAAYAATGTVMGV +TGGYTRTCYATHCARTCHAARAGRTTYGCHCCWYTDTAYGCASWKGARGCHAARAGRATW +CARAARYTRGARCAYACYATWAAYAAYTACRTACAGTTCAAGAGCAARCACCGTATTGAR +CCAGTATGTTTGYTAGTRCATGGSAGYCCMGGDACAGGHAAATCWGTWGCVACYAAYCTR +ATTGCYAGRGCMATWGCYGARARAGARAACACBTCCACNTACTCRCTRCCMCCDGAYCCV +TCWCACTTYGAYGGHTAYAARCAACARGGWGTRGTKATYATGGAYGAYCTRAAYCARAAY +CCRGAYGGDGCVGAYATGAARCTBTTYTGYCARATGGTVTCMACWGTRGARTTYATHCCA +CCNATGGCHTCSYTRGARGARAAAGGMATYYTRTTYACWTCHAAYTAYGTYYTRGCMTCM +ACSAACTCMAGYMGVATYWCMCCMCCYACDGTDGCHCACAGTGAYGCDYTRGCCAGRMGV +TTYGCDTTYGAYRTGGAYATWCARGTSATGRRYGAGTAYTCYAGAGAYGGDAARYTSAAC +ATGGCMATGGCWACTGARAYGTGYNAARRACTGYCAYCAACCAGCAAANYTTYAARAGAT +GYTGYCCWTTAGTGTGTGGHAAGGCAATTCARTTAATGGAYAAATCHTCCAGRGTYAGRT +ACAGYRTTGAYCARATYACYACMATGATYRTYAAYGAGAGAAACAGAAGATCHAACATTG +GYAAYTGYATGGARGCWYTRTTYCARGGMCCHCTSCARTAYAARGAYYTRAARATWGAYR +TYAARACSASBCCMCCYCCDGARTGYATMAAYGAYYTRCTYCARGCHRTWGAYTCCCARG +ARGTSAGRGAYTAYTGTGARAAGAARGGNTGGATHGTBAAYRTYACYAGYSMRGTYCARA +CWGARAGRAAYATYAAYMGRGCRATGACHATHYTRCARGCRGTVACHACBTTYGCHGCAG +TVGCYGGWGTBGTSTAYGTBATGTAYAARYTVTTYGCWGGRCAMCARGGWGCWTACACWG +GWYTDCCMAAYAARMRACCYAAYGTDCCYACYATYAGRRCWGCMAARGTRCAAGGVCCWG +GSTTYGAYTAYGCWGTRGCYATGGCYAARAGAAACATYSTYACAGCRACYACYWGYAARG +GDGAGTTYACNATGYTDGGRGTBYAYGAYAAYGTRGCYATYYTRCCAACHCAYGCHTCAC +CWGGWGARASHATDGYVATYGAYGGYAARGARGTDGARRTYYTDGAYGCYAARGCNCTHG +ARGAYCARGCWGGMACYAATCTKGNNAAATYACYATWRTHACNCTVAARAGRAAYGARAA +GTTYAGAGAYATYAGRCMACAYATHCCYACYCAAATCACYGARACDAAYGATGGAGTBYT +GATYGTGAACACTAGYAAGTACCCCAAYATGTATGTYCCYGTYGGTGCTGTGACYGARCA +GGGRTAYCTHAATCTCGGTGGVCGHCARACYGCTCGTAYKYTAATGTACAACTTYCCAAC +BAGAGCWGGHCAGTGYGGTGGWGTYATCACDTGYACKGGBAARGTCATYGGGATGCAYGT +TGGWGGGAAYGGTTCRCAYGGGTTYGCRGCRGCCCTRAAGCGRTCATACTTYACTCAGAK +YCAAGGTGARATYCARTGGATGARACCWTCDAARGARGYDGGRTAYCCDATYATMAAYGC +YCCNWSYAARACYAARYTHGARCCMAGYGCWTTYCACTAYGTRTTTGARGGDGTVAARGA +ACCAGCAGTYYTNACHAARAAYGAYCCCAGRCTHARRACRRAYTTTGARGARGCMATHTT +CTCYAARTAYGTRGGBAACAARRTYACTGADGTGGATGARYACATGAARGAGGCWGTDGA +YCAYTAYGCWGGMCARCTHATGTCDCTRGAYATYARCACWGAVCAAATGTGYYTDGARGA +YGCMATGTAYGGHACYGATGGYCTDGARGCDYTWGAYYTBWSYACYAGTGCHGGNTAYCC +HTAYGTRGYMWTGGGRAAGAARAAGAGAGAYATCYTRAAYAARCARACYAGAGACACYAA +RGARATGCRRARRCTNYTVGAYRCHTAYGGMATYAACYTMCCDYTDGTVACHTAYGTNAA +RGAYGARCTNAGRTCHAARASHAARGTKGARCARGGVAAATCYAGRYTRATTGARGCYTC +BAGTYTVAAYGAYTCWGTKGCMATGAGAATGGCHTTTGGVAAYCTNTATGCWGCHTTYCA +CARRAAYCCAGGDGTNRTVACWGGHWSWGCWGTNGGDTGYGATCCAGAYYTRTTYTGGAG +YAARATHCCRGTVYTRATGGARGARAARCTNTTTGCHTTTGAYTACACMGGDTAYGAYGC +WTCHCTYAGYCCDGCYTGGTTYGARGCHCTMAARATGGTBYTWGAGAARATYGGDTTYGG +DGAYAGRGTKGAYTAYATHGAYTACCTNAAYCAYTCHCACCAYYTKTACAARAAYAARAY +HTAYTGYGTHAARGGYGGYATGCCATCTGGYTGCTCHGGYACWTCAATYTTYAAYTCAAT +GATYAACAAYYTRATHATYAGGACRCTYYTACTGAAAACCTACAAGGGCATAGATTTRGA +YCACYTAAARATGATWGCCTATGGTGAYGATGTAATWGCTTCCTAYCCCCATGARGTTGA +YGCTAGTCTCCTAGCCCAATCAGGAAAAGACTATGGACTMACYATGACWCCRGCWGAYAA +RTCWGCHAYHTTTGARAMRGTCACATGGGARAATGTAACWTTCTTGAARAGATTCTTYAG +RGCRGAYGARAARTAYCCMTTYYTHRTWCATCCAGTDATGCCAATGAARGARATTCATGA +ATCAATYAGATGGACWAARGATCCYMGRAAYACNCAGGAYCAYGTDCGCTCHYTGTGYCT +ATTRGCYTGGCACAAYGGVGAAGAAGARTAYAACAARTTYYTAGCTAAAATYAGRAGYGT +RCCAATYGGRAGAGCWTTRYTGCTCCCHGAGTACTCHACAYTGTACCGCCGTTGGCTYGA +CTCWTTTTAGTAACCCTACCTCAGTCGAATTGGATTGGGTYATNN diff --git a/primerschemes/varvamp-polio/1000/v1.0.0/work/overview.png b/primerschemes/varvamp-polio/1000/v1.0.0/work/overview.png new file mode 100644 index 0000000..43ea282 Binary files /dev/null and b/primerschemes/varvamp-polio/1000/v1.0.0/work/overview.png differ diff --git a/primerschemes/varvamp-rat-hev/1200/v1.0.0/README.md b/primerschemes/varvamp-rat-hev/1200/v1.0.0/README.md new file mode 100644 index 0000000..a60ba2b --- /dev/null +++ b/primerschemes/varvamp-rat-hev/1200/v1.0.0/README.md @@ -0,0 +1,63 @@ +# varvamp-rathev 1200bp v1.0.0 + +[primalscheme labs](https://labs.primalscheme.com/detail/varvamp-rathev/1200/v1.0.0) + +## Description + +Pan-specfic primer scheme for ratHEV designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates. + +## Overviews + +![overview.png](work/overview.png) + +## Details + +```json +{ + "ampliconsize": 1200, + "schemeversion": "v1.0.0", + "schemename": "varvamp-rathev", + "primer_bed_md5": "c008eeb2d8838bdb0253cc4f23d95d63", + "reference_fasta_md5": "6901e6ce9dd33aa804ee327a73660896", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.3", + "species": [ + 1678145 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "COMMUNITY", + "CLINICAL-ISOLATES", + "WHOLE-GENOME" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/ratHEV" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for ratHEV designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) \ No newline at end of file diff --git a/primerschemes/varvamp-rat-hev/1200/v1.0.0/info.json b/primerschemes/varvamp-rat-hev/1200/v1.0.0/info.json new file mode 100644 index 0000000..71aa7c8 --- /dev/null +++ b/primerschemes/varvamp-rat-hev/1200/v1.0.0/info.json @@ -0,0 +1,39 @@ +{ + "ampliconsize": 1200, + "schemeversion": "v1.0.0", + "schemename": "varvamp-rathev", + "primer_bed_md5": "c008eeb2d8838bdb0253cc4f23d95d63", + "reference_fasta_md5": "6901e6ce9dd33aa804ee327a73660896", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.8.3", + "species": [ + 1678145 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "COMMUNITY", + "CLINICAL-ISOLATES", + "WHOLE-GENOME" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/ratHEV" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for ratHEV designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} \ No newline at end of file diff --git a/primerschemes/varvamp-rat-hev/1200/v1.0.0/primer.bed b/primerschemes/varvamp-rat-hev/1200/v1.0.0/primer.bed new file mode 100644 index 0000000..a067f48 --- /dev/null +++ b/primerschemes/varvamp-rat-hev/1200/v1.0.0/primer.bed @@ -0,0 +1,12 @@ +ambiguous_consensus 83 106 ratHEV_0_LEFT_1 0 + CTACCGCCTTTGCTAATGCTCAG +ambiguous_consensus 1327 1347 ratHEV_0_RIGHT_1 0 - GAVACCCARTCYCKRCACTG +ambiguous_consensus 2196 2216 ratHEV_1_LEFT_1 0 + GCBTTYGAYCGBACYCAGTT +ambiguous_consensus 3773 3796 ratHEV_1_RIGHT_1 0 - CACYACYTCYACRTCATCATGCC +ambiguous_consensus 4340 4359 ratHEV_2_LEFT_1 0 + TGCGGGGYMGRTGGAAGAA +ambiguous_consensus 5551 5573 ratHEV_2_RIGHT_1 0 - TCRGTSGARGTGATGGARTTCA +ambiguous_consensus 1182 1203 ratHEV_3_LEFT_1 1 + SACRCARGGYATATCHATGGG +ambiguous_consensus 2368 2389 ratHEV_3_RIGHT_1 1 - ATATDCCRCTHCCRAGNAGGC +ambiguous_consensus 3532 3552 ratHEV_4_LEFT_1 1 + GTGGCYYTRCAYCAGATGGC +ambiguous_consensus 4925 4945 ratHEV_4_RIGHT_1 1 - CAGCAAAAGCACGAGCACGA +ambiguous_consensus 5385 5408 ratHEV_5_LEFT_1 1 + GGGTCYAACACGCAYATYATGGC +ambiguous_consensus 6807 6826 ratHEV_5_RIGHT_1 1 - YTGACARVGCCTGCACTCG diff --git a/primerschemes/varvamp-rat-hev/1200/v1.0.0/reference.fasta b/primerschemes/varvamp-rat-hev/1200/v1.0.0/reference.fasta new file mode 100644 index 0000000..ab77055 --- /dev/null +++ b/primerschemes/varvamp-rat-hev/1200/v1.0.0/reference.fasta @@ -0,0 +1,117 @@ +>ambiguous_consensus +GCAACCCCCGATGGAGACCCATCARTATGTCGCCGCCACGGGGGTTAATACTGCTAGRGA +GGCCCAGGCYACTGCGGCAGCGGCTACCGCCTTTGCTAATGCTCAGGTGGTWCGCCCCTW +CYTGTCGCATTCTCAAGCYTCYCTSCTTGTTGAGCTTTTCTCCCCTYTGCAGCTTGTCTT +TGARCCCGCTGTTTCTTGGTCGCATCCGGTACAGCGYGTTATTCATAATTTTCTGGAGGC +GTACGTCCGSCGCAAGGCTGGCSCTTGCCTGGAGGTYGGTGCGCACCCTMGRTCTATTAA +TGAGCACGCCAATGTCATWCACAGATGYTTTCTYCCRCCTGACGGTAGAGATATGCARCG +YTGGCGAGATTGYCCGCGGCGVGGSCCRGCYAAYAACATCCGCCGTTGCATTCTYRCRGG +GCGCCCGGCTACTGATCTTTCCTTTTGCACRMRTGGRTTCSARCGYTGYCGSCAYTATGC +CGABGTSGGVATYGCGYTSTAYTCCYTSCAYGATYTACATCCGCGTGAGGTTGCCMGGGC +WATGCGTGCTCATGGYATGCACACTYTATAYGCTGTGATGCAYYTRCCBGCDGAGGCRYT +BYTGCCRGAYGGGGTKTAYACMACYCGYGCYTAYACMGCRMGVAAYYTKGAGGGGCGBYT +GATWGTYACHTAYGARGGVGAYACRTCRGCVGGSTAYARYCAYGACCGYAARTCYATCMG +GTCYTGGATYAARGCHACYAGRGTBCGVGGYTGYTGYGCVYTKGTYATHGAGCGBGTKAG +GGCYRTKGGSTGYCAYTTYGTSCTRCGBMTDACHACHGTGRCVAAYCCDTGCCCYATGCC +VTAYACCCCYTAYCCBARGGCMACYACCATYTATGTGCGCAGYYTGTTYAGYGCYGGSRS +BMANRCVGGSCCBYTRGGCCCYCCCCCYYTGATGTGYGAGAAGKCYMGRTCHACHTTYCA +YTGYGTSCCDRYHGAYATYTGGGAYMGRCTYATGYTRTTYGGRGCVACSYTSGAYGAYGA +RGCYTTYTGYTGCAGYCGCCTYATGACHTAYYTRCGHGGSATHTCDTTYAARGTYACYGT +YGGSACRGTYGTYGCYAAYGARGGYTGGACCACHGAYGAGTAYGCYCTYACBGCBGTKGT +TGTKGCVTCBTAYCTBACMATHTGCCAYCARCGYTGGATYCGSACRCARGGYATATCHAT +GGGSATYAARCGYYTDGCHAAAGARCAYCARCARGGBCTBCTCTTCCGBYTSGGSGAGTG +GCTHYTRRCHAAGRTSTGYGGGCCVMRNGAGACRTTYGTVCCVGGBMGGCARYTRCARTT +YTAYAGRCAGTGYMGRGAYTGGGTBTCRGCRGGKTTYTAYRTVGAYCTYAGRGAGCTYTG +YTTYGAYCGRGAGTAYGCYTGCCCBTGCCTCCCBYTYGAGCRBRYVRTBCGYAARGGYTG +YWRYTGTGTBGCSCGHAARYTRARGCAGGTKTGYGGBTGYTTYATGDCDGAYGYDRTBGA +RKSYYTRGARGAYTCDDKDGAGGAYYTBACDGCVGAYYTYTACCCBRARCCVGAKGYVTA +YRWRCCVSMDGGVYTRGAYAAYTGGACDRTVMGVGCYCTHACVGAYKSYYTBYWYMARGC +BKSNBWVCGYGCVSTRMRBRCYGGHRYVAARYTRGCHRRBTGGCCBSRRATYGGGYTRGC +NTTYTWYMTYKCYCCHRTRGGYMTDGTYTTYHGBGGVGAGCCBSYRCCVGGVCCYSSBGG +YCGYYGDMYDGARSVDGGBCCBTWYTGGGSYGAYGYBSCVCCNYNCVYCHHCRYCRGABG +ARGHNNCYRTWYCAHACVCCBGTSAGYCCRGAYGGSCCBCCYCCVCCDGCBTCYTGGACR +CCBGGSCCDATHTCYCCBMGGTAYRYNCTYCCNACRCCKRTYGARTAYCGHGGBCAYCSV +CCYGGSTCBGCRGGBTTYTGGGAGBYRWCYCCYRVCCCYHCHBCYGRDRVSYCDYTRAGY +CGBCAYWCDTCCCTYCAGAGYGTYRMYYTDGMNCCVSMBCGHAACCCNCCDGTYSMRCCD +RYYCAGAGRRTVYTVYTRGAVYTGYTVCCBGAYGGBGCDGCDGTHTATGARGGGGAYYTW +TTYARYTCWRAYTGYTWYTGGYTDGTYAAYGCRGCCAAYSCYCARCAYRMVCCNGGDGGR +GGYRTNTGYGGBGYBTTYTWYRRRCGYTWYCCRGAGGCBTTYGAYCGBACYCAGTTYRTY +CAYCCYAAYGGGKCKSDGGCBGCYTAYACDGTBACRCCYAGGCCNATMATMCAYGCYGTB +GCVCCKGAYTAYAGRSKBCGNMRRGAYCSDGCBGCYYTRCARRYBGCYTAYCARGARTGY +YTVTAYAGRCARGARMSRGCBGCVTAYTGCCTNCTYGGDAGYGGHATATAYCARGTVCCV +CCHSARGAGTCYATGCARGCYTGGYTRGAYAAYCAYYTVCCDGGVGAYGAGATGTAYNTR +YTRCCDKCNWTGWCRYCHTGGTAYMGRKCSTGGCGYGCNBSRKRCYGSBRYVRBSNNSSV +SGRGRYRSVYYBBVRRNNYNYCBYCVCCBBNNCYBYYNNCYNCNNGVYGRYSGYGRGGSB +NBYBSYSYYRNSBSYVCCRRSCCRNATHYTRGTBRTYACYCCDRRYYTRGCHAAYACVGC +YAAYYTRGCHYTSCAGCARGARKCRGAGGGSCCBTTYGSHAARTTYRTBGGYAAYGCCCA +YGTBCCMCCNGGVCCGGTSMRHTAYMGGTTYGTDGCBGGBGTBCCRGGBTCVGGKAAGTC +YGTYGGBGTSCGBMRKSARGAYTGYGAYYTRGTBATYGTDCCVACVAAYCAGYTBAAGGC +NCARTGGMGDGCNMGRGGYTTYCCYGTDATGACCCCSCAYGTBGGRYTRCARCAYTSYCR +RGGBAARAGGYTGGTYRTKGAYGAGGCYCCVWCSMTYSCSCCDCAYYTSYTGCTNTGYTA +YATGACVKCYGCYGCKGAHGTBBTBYTBYTDGGGGACCCHMGRCAGATYCCVGCMATWGA +YTTTGARAGYAARGGBCTBATYCCBGCYATGCAGYTVAAYYTRGARCCBACRGARTGGCG +SYTBCAGTCCCAYCGVTGCCCSCGRGATGTGTGYYAYCTBYTRTCVGCSGAYTACCCVGG +GATGWCYACSACRAAYCCNRTDGTYAGRTCYYTRRTKTTYWCYGGGSASRGBGMBGGVCA +GRKGYTKGTGTTYACBCARGCRGCBAAGGCYATGCACCCYGGVTCBATHACYGTBCATGA +GGCBCAGGGSAGYACHTTYAAYACYACYACYMTYRTKGTGACNAATGAYGCVCGBGGSYT +DYTRGCBKCRTCBCGRGCYCAYTGYATHGTBGCYYTGACBMGGCAYACWGAYAARTGYTA +YRTYYTDGAYGGCCCBGGGYTSYTRAARGARYTBGGBGTYACRGAYTCYATYYTDMAYAA +YTTYTAYYTRACMCAGCCBGTGGAGGTBCARGCBMGGCCBGCMGCDGTBGARMRGGCBGA +GMRRWSBGMVAAYYTGCAGGAYATHGAYRYRGTBCCYCCBGCYCCHCCDGAYGTGGCYYT +RCAYCAGATGGCYGARGCHTTYGGCCAYAGRCCVCTNGAGGTBCGRGCDGTSGTGCCBCT +YTGCCCYSCRYTVGAGCARGGNAARCTYTAYACYCCTTTYAAYHTKDCNGGYCGRGABCA +GGTRACYGTVYTRGCYYTVTCCYCYACHGTGCAYTGCCGYATGGCBGCCCCRGCVCAYMG +RYTRGCYGTYYTGTCBACDCTYGTVGGSMGRTAYGGVAARGAGACWAARYTRTGGCATGA +TGAYGTRGARGTRGTGCGRGAGTCRYTVMGDRYSYTGRTVCCVTCVMTBYMRGGYGTYAR +RGTKWCHTCRTGYGAGYTBRYKGARYTRGTYGAGGCDATGRTBGCSMGBGGBCAGGAYGG +YACYGCBGTBCTNRAYYTRGAYTTYWCTGAYAAGGCVTGYACHAGRATAACMTTYTTYCA +GAAGGAYTGYAAYAARTTYACYACRGAYGAGCCRGTRCARCAYGGYAAGGTBGGBCAGGG +VATWTCRGCVTGGTCHAARACVCTTGTRGCBYTGTTYGGCCCYTGGTTYMGGGCCATAGA +GAAGGCSATWGTSGMCAMHYTGCCYGARTGGTGYTTYTATGGKGAYTGYTATRYBCAGGA +GAARTTDGARGCYGCYGTVGCHGGRGCDAARGCDTGYMGDGTKTTTGAGAAYGAYTTYAG +TGAGTTTGAYAGYACMCARAAYAAYTAYTCBYTRGGBYTKGAGTGYYTRYTRATGARRGA +RGCVGGBGCMCCBGARTGGHTGTGGAGRYTBTACCAYCTBYTSMGKTCKGCVTGGGTGYT +RCARGCYCCBCARGARAGCYTGCGGGGYMGRTGGAAGAARCAYTCVGGKGARCCVGGYAC +RYTGYTDTGGAAYACWGTYTGGAAYATGGCHGTBATAHTRCAYTGYTAYCRKTTTGAYGG +BYTRGCYGTRGCYGCVTTYAARGGBGAYGAYTCYRTBGTKTGCTGYCGRTTYTAYCARCA +RRRGCCYCRRGCHGCBGCSCTYATYACMGGYTGYGGYCTYAARYTBAARGTYAAYTTYGG +BGAYGTYGGGTCYTATGCRGGYYTGYTBGTBGCYTGYGGSCTYGGBGTBACSCCYGAYGT +YGTYAGGTTYYTRGGRAGRMTHTCKGAGAAGAAYTGGGGCCCBGTSAARGARCGBARGGA +RGAYCTYGARCARKCYGTSCGHGAYTTYGTBGCDARRYTGMRVAAYGTYACYGCYYTKTC +DTGYYTRYTBGCYACBMGVTTYTAYAARYTRGARCCNGGBYTKGCCCTYAATGCRGTYGC +VGGBYTBAAGGCBATYGCYGARGGSCGBATGGARYTBAARGARTAYACYTGGCCDGTYYT +VCAGYTGGAGGGGAAGARGGAATAACAYTCKGGBYYGTAGCATGTGYGCGRAATGYBTGT +CRYTKTCGTGCTCGTGCTTTTGCTGTTCGTGCCGCTGCTGYYYGCGGNCCCCMATGTACC +CCGGDGGANCCCGGGGYGYHGGBGGGCCSCGRCGNGGSACACGWKCAGATGSARCCBTGY +CTCACCCAGNCCCMBCCCCCRMYCCARCDBAYYAATTGGCTRTCMCCAACCAAYCCYTTT +GCYGCCGARCTYTCCMSYRTGCCCCCMCTYGGSWCMGCMTGGGTYGAYCGGCGCCGCGGC +RGSYCMCGYMRCCGSBYTGCCBYMGTAYCCGATGCCGGGCAGTCGCCAATGACHGCVCAR +GCMCCBGCGCCVAAYACYGCGCCYGTCCCYGATGTGGAYAGYCGVGGSTCYATYYTVCGY +CGGCAGTAYAAYYTDTCYACVTCRCCBYTRACYYTGACHGTYCCYCAGTCSTCYAAYTCC +ATMYTSTATGCKGCRTCBYTGAAYCCBCTHCTRCCYYTGCAGGAYGGGTCYAACACGCAY +ATYATGGCGACTGAGGCYTCHAAYTATGCYCARTAYMGRGTBCAGGCRKSYACVYTGMGS +TTYCGBCCBYTRGTYCCMAAYTCRGTBGGVGGBTAYGCRGTKTCRATGTCHTTYTGGCCV +CARTCYACMACVGTYCCVACRTCGGTBGAYATGAAYTCCATCACYTCSACYGAYGTRCGB +ATYGTGGCBCARCCHGGYYTGGCYGCVGAGYTBGTYRTBCCDMRGGAGCGSYTBCAYTAY +CGVAAYCARGGYTGGCGCTCYGTKGARACVAAYTCDGTGCCDCAGGARGAGTCHACBTCN +GGRATGYTRATGGTYTGCATYCAYGGYGCVCCYATYAATTCBTTYACYAAYWCMSCYTAY +ACBGGBGCHYTRGGYYTRYTWGAYATYGCCCTBCAGGTKGAGTAYMGSAAYYTRACVCCY +GGYAAYACYAACACYCGYGTKAAYMGRTTCCGYACCACVGCCCCYCAYAAGATMAAGCGS +YTGCCYGAYGGYACBGCVCARGTBKCHACYGCRTCYGCYGTSAGGTTCATGCAGGAYGTS +CACCTRRCDGGYRRYAAYGGYGTRGGBGAYATAGGYAAGGGYATTGTNCAGGTYYTRTTY +AAYATWGCRGAYACMYTRYTRGGYGGSCTVCCVACRGAYCTKGTBTCBAAYGCYGGRGGS +CARYTGTTYTAYGGYCGSCCBCAGGTGTCYGAGAAYGGDGARCCHTCKGTYAARCTYTAY +ACHTCTGTKGARGCMGCCCARYTNGAYCADGGBGTKACMATMCCYCATGAYATWGAYYTR +GGKSTRTCYGCYRTYACAYTRCAGGAYTTTGACAAYCARCAYYTSCAGGAYMGBCCVACS +CCYTCVCCDGCGCCVGCYCGYCCVATHACBAAYTGGCGBTCYGGYGATGTKGTSTGGGTB +ACNYTRCCHTCDGCYGARTAYGCBCARTCBCAGAGYGCHATGGGBTCCCACCCRGCHTAY +TGGTCYGAGGAGGCRACHATHATYAAYGTYGCYACNGGYCARCGGGCYKYBGTKTCYAGY +RTHAAGTGGGAYCARGTYACYYTBAAYGGYAAGGYSYTRCAYAARGAGACHCAYTCMGGC +YTDGTHTAYTAYCARYTGCCRYTDATGGGKAAGATCARTTTYTGGCAGCARGGYACHACY +AARGCYGGYTAYACWTATAAYTAYAAYACYACWGAYTCWGATAGTYTGTGGGTBTGGTGG +GATGGGRSCTCTAARGCTTATCTYTATRTWTCYACYTATACTACTATGCTRGGYGCTGGR +CCTGTTAAYATCACBGGRYTGGGWGCTRTCGGCCCYARYCCBRYTGAKCAGGSHTCRGYK +GYWGYGCCSATGCATAATYTWCAGGATGGCTGCCCAGCCTGTGCTTTGGCCGGGCTWTCY +WCCTGCCTCGTKGCTGATGCTATGGCGCGAGTGCAGGCBYTGTCARCMGCRGCMGCCGAY +AGTGTCTRRTTANTTYYNTTTCTTNYYNTTWDYDYYNHBYYNTTWHWTYYNNYTTTTYYT +TTTCTGCYYYYCGCAAGACANN diff --git a/primerschemes/varvamp-rat-hev/1200/v1.0.0/work/overview.png b/primerschemes/varvamp-rat-hev/1200/v1.0.0/work/overview.png new file mode 100644 index 0000000..f4b6681 Binary files /dev/null and b/primerschemes/varvamp-rat-hev/1200/v1.0.0/work/overview.png differ diff --git a/primerschemes/varvamp-sars-cov-2/700/v1.0.0/README.md b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/README.md new file mode 100644 index 0000000..01563f0 --- /dev/null +++ b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/README.md @@ -0,0 +1,63 @@ +# varvamp-sars-cov-2 700bp v1.0.0 + +[primalscheme labs](https://labs.primalscheme.com/detail/varvamp-sars-cov-2/700/v1.0.0) + +## Description + +Pan-specfic primer scheme for SARS-CoV-2 designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates. + +## Overviews + +![overview.png](work/overview.png) + +## Details + +```json +{ + "ampliconsize": 700, + "schemeversion": "v1.0.0", + "schemename": "varvamp-sars-cov-2", + "primer_bed_md5": "8a25d211ffdc65d7b1b3c3cdde3639fc", + "reference_fasta_md5": "c12180b68bcc554de9fa27522e491592", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.9.4", + "species": [ + 2697049 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "CLINICAL-ISOLATES", + "COMMUNITY", + "WHOLE-GENOME" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/SARS-CoV-2_2" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for SARS-CoV-2 designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) \ No newline at end of file diff --git a/primerschemes/varvamp-sars-cov-2/700/v1.0.0/info.json b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/info.json new file mode 100644 index 0000000..d9e4c4d --- /dev/null +++ b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/info.json @@ -0,0 +1,39 @@ +{ + "ampliconsize": 700, + "schemeversion": "v1.0.0", + "schemename": "varvamp-sars-cov-2", + "primer_bed_md5": "8a25d211ffdc65d7b1b3c3cdde3639fc", + "reference_fasta_md5": "c12180b68bcc554de9fa27522e491592", + "status": "validated", + "citations": [], + "authors": [ + "Jonas Fuchs" + ], + "algorithmversion": "varVAMP:0.9.4", + "species": [ + 2697049 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.0.0", + "articbedversion": "v2.0", + "collections": [ + "CLINICAL-ISOLATES", + "COMMUNITY", + "WHOLE-GENOME" + ], + "links": { + "protocols": [], + "validation": [ + "https://www.biorxiv.org/content/10.1101/2024.05.08.593102v1.full" + ], + "homepage": [ + "https://github.com/jonas-fuchs/ViralPrimerSchemes/tree/main/varvamp_tiled/SARS-CoV-2_2" + ], + "vendors": [], + "misc": [] + }, + "description": "Pan-specfic primer scheme for SARS-CoV-2 designed with varVAMP on the basis of full length genomes. The design utilizes degenerated primers and was validated on clinical samples and isolates.", + "derivedfrom": null, + "contactinfo": "jonas.fuchs@uniklinik-freiburg.de" +} \ No newline at end of file diff --git a/primerschemes/varvamp-sars-cov-2/700/v1.0.0/primer.bed b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/primer.bed new file mode 100644 index 0000000..c974003 --- /dev/null +++ b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/primer.bed @@ -0,0 +1,110 @@ +ambiguous_consensus 30 54 SARS-CoV-2_0_LEFT_1 0 + ACCAACCAACTTTYGATCTCTTGT +ambiguous_consensus 783 805 SARS-CoV-2_0_RIGHT_1 0 - ATCGACATAGCGAGTGTATGCC +ambiguous_consensus 1235 1257 SARS-CoV-2_1_LEFT_1 0 + GGCAGACGGGYGATTTTGTTAA +ambiguous_consensus 1917 1939 SARS-CoV-2_1_RIGHT_1 0 - GGCCTTCTGTAAAACACGCACA +ambiguous_consensus 2118 2139 SARS-CoV-2_2_LEFT_1 0 + ACCCRTCCTTGATTGGCTTGA +ambiguous_consensus 2861 2883 SARS-CoV-2_2_RIGHT_1 0 - ATGACAGCATCTGCCACAACAC +ambiguous_consensus 3123 3145 SARS-CoV-2_3_LEFT_1 0 + TGGAATTTGGTGCCACTTCTGC +ambiguous_consensus 3841 3865 SARS-CoV-2_3_RIGHT_1 0 - GGAATCTCAGCGATCTTTTGTTCA +ambiguous_consensus 4261 4283 SARS-CoV-2_4_LEFT_1 0 + AGAGGAGGCAAAGACAGTGCTT +ambiguous_consensus 4983 5005 SARS-CoV-2_4_RIGHT_1 0 - GACATGTCCACAACTTGCGTGT +ambiguous_consensus 5272 5295 SARS-CoV-2_5_LEFT_1 0 + TGCCACTGCATTGTTAACACTCC +ambiguous_consensus 5995 6018 SARS-CoV-2_5_RIGHT_1 0 - AGCTTGCGTTTGGATATGGTTGG +ambiguous_consensus 6342 6365 SARS-CoV-2_6_LEFT_1 0 + CGCAGGGAATGGATAATCTTGCC +ambiguous_consensus 7076 7099 SARS-CoV-2_6_RIGHT_1 0 - AGAACCAGTACAGTAGGTTGCAA +ambiguous_consensus 7555 7579 SARS-CoV-2_7_LEFT_1 0 + GCTAATGGAGGTAAAGGCTTTTGC +ambiguous_consensus 8286 8307 SARS-CoV-2_7_RIGHT_1 0 - AGGTCACGGGGTGTCATGTTT +ambiguous_consensus 8672 8695 SARS-CoV-2_8_LEFT_1 0 + AGGCTATTGATGGTGGTGTCACT +ambiguous_consensus 9356 9379 SARS-CoV-2_8_RIGHT_1 0 - TGCTGATATGTCCAAAGCACCAA +ambiguous_consensus 9622 9646 SARS-CoV-2_9_LEFT_1 0 + CAGTGGATGGTTATGTTCACACCT +ambiguous_consensus 10344 10366 SARS-CoV-2_9_RIGHT_1 0 - AGTCTGTCCTGGTTGAATGCGA +ambiguous_consensus 10648 10669 SARS-CoV-2_10_LEFT_1 0 + GCTTGGTTGTACGCTGCTGTT +ambiguous_consensus 11420 11442 SARS-CoV-2_10_RIGHT_1 0 - GCCCACATGGAAATGGCTTGAT +ambiguous_consensus 11768 11789 SARS-CoV-2_11_LEFT_1 0 + TGTTGGGTGTTGGTGGCAAAC +ambiguous_consensus 12510 12533 SARS-CoV-2_11_RIGHT_1 0 - GGATTTCCCACAATGCTGATGCA +ambiguous_consensus 13006 13027 SARS-CoV-2_12_LEFT_1 0 + GCAACAGAAGTGCCTGCCAAT +ambiguous_consensus 13783 13805 SARS-CoV-2_12_RIGHT_1 0 - AAAGCATAGACGAGGTCTGCCA +ambiguous_consensus 13987 14009 SARS-CoV-2_13_LEFT_1 0 + TCTGTGATGCCATGCGAAATGC +ambiguous_consensus 14738 14760 SARS-CoV-2_13_RIGHT_1 0 - AGCAGCATTACCATCCTGAGCA +ambiguous_consensus 15061 15083 SARS-CoV-2_14_LEFT_1 0 + CAAAGAATAGAGCTCGCACCGT +ambiguous_consensus 15807 15831 SARS-CoV-2_14_RIGHT_1 0 - AGTAAGGTCAGTCTCAGTCCAACA +ambiguous_consensus 15981 16004 SARS-CoV-2_15_LEFT_1 0 + TTGAACGGTTCGTGTCTTTAGCT +ambiguous_consensus 16672 16694 SARS-CoV-2_15_RIGHT_1 0 - TCTGTCAGACAGCACTTCACGT +ambiguous_consensus 17123 17147 SARS-CoV-2_16_LEFT_1 0 + GTGTATACAGCTTGCTCTCATGCC +ambiguous_consensus 17805 17829 SARS-CoV-2_16_RIGHT_1 0 - CTGAGCCCTGTGATGAATCAACAG +ambiguous_consensus 18074 18095 SARS-CoV-2_17_LEFT_1 0 + ACACAGGCACCTACACACCTC +ambiguous_consensus 18852 18874 SARS-CoV-2_17_RIGHT_1 0 - ACRAAGCACTCGTGGACAGCTA +ambiguous_consensus 19250 19272 SARS-CoV-2_18_LEFT_1 0 + GGTTGTGATGGTGGCAGTTTGT +ambiguous_consensus 19933 19956 SARS-CoV-2_18_RIGHT_1 0 - CAGTGAGTGGTGCACAAATMGTT +ambiguous_consensus 20436 20459 SARS-CoV-2_19_LEFT_1 0 + CAGATGCGCAAACAGGTTCATCT +ambiguous_consensus 21180 21201 SARS-CoV-2_19_RIGHT_1 0 - ACCATGCGAAGTGTCCCATGA +ambiguous_consensus 21268 21288 SARS-CoV-2_20_LEFT_1 0 + TGGCAAAMCACGCGAACAAA +ambiguous_consensus 22010 22034 SARS-CoV-2_20_RIGHT_1 0 - AGGTCCATAAGAAAAGGCTGAGAG +ambiguous_consensus 22369 22391 SARS-CoV-2_21_LEFT_1 0 + CTGTGCACTTGACCCTCTYTCA +ambiguous_consensus 23140 23163 SARS-CoV-2_21_RIGHT_1 0 - ACTCAGTAAGAACACCTGTGCCT +ambiguous_consensus 23426 23447 SARS-CoV-2_22_LEFT_1 0 + TTTCAAACACGTGCAGGCTGT +ambiguous_consensus 24119 24140 SARS-CoV-2_22_RIGHT_1 0 - ACCCGCTAACAGTGCAGAAGT +ambiguous_consensus 24482 24505 SARS-CoV-2_23_LEFT_1 0 + AGGTTGATCACAGGCAGACTTCA +ambiguous_consensus 25198 25221 SARS-CoV-2_23_RIGHT_1 0 - AGCAACTGGTCATACAGCAAAGC +ambiguous_consensus 25603 25625 SARS-CoV-2_24_LEFT_1 0 + CTCACACCTTTTGCTCRTTGCT +ambiguous_consensus 26285 26306 SARS-CoV-2_24_RIGHT_1 0 - GCACACAATCGAAGCGCAGTA +ambiguous_consensus 26758 26779 SARS-CoV-2_25_LEFT_1 0 + TTCAGACTGTTTGCGCGTACG +ambiguous_consensus 27519 27541 SARS-CoV-2_25_RIGHT_1 0 - CCRTCAGGACAAGCAAAAGCAA +ambiguous_consensus 27924 27946 SARS-CoV-2_26_LEFT_1 0 + TGTAGTTGAYGACCCGTGTCCT +ambiguous_consensus 28631 28652 SARS-CoV-2_26_RIGHT_1 0 - ATTRCGGGTGCCAATGTGATC +ambiguous_consensus 29029 29050 SARS-CoV-2_27_LEFT_1 0 + ACGTGGTCCAGAACAAACCCA +ambiguous_consensus 29752 29776 SARS-CoV-2_27_RIGHT_1 0 - AAATCACATGGGGATAGCACTACT +ambiguous_consensus 683 704 SARS-CoV-2_28_LEFT_1 1 + ACGAGCTTGGCACTGATCCTT +ambiguous_consensus 1433 1455 SARS-CoV-2_28_RIGHT_1 1 - ATAGTRCGACCACCCTTACGAA +ambiguous_consensus 1684 1707 SARS-CoV-2_29_LEFT_1 1 + TCTGCTTCCACAAGTGCTTTTGT +ambiguous_consensus 2366 2389 SARS-CoV-2_29_RIGHT_1 1 - TCCCTTTGAGTGCGTGAYAAATG +ambiguous_consensus 2693 2714 SARS-CoV-2_30_LEFT_1 1 + GCGGTGCACCAACAAAGGTTA +ambiguous_consensus 3443 3464 SARS-CoV-2_30_RIGHT_1 1 - TCCTGCAACACCTCCTCCATG +ambiguous_consensus 3664 3686 SARS-CoV-2_31_LEFT_1 1 + GCACGAAGTTCTACTTGCACCA +ambiguous_consensus 4382 4403 SARS-CoV-2_31_RIGHT_1 1 - GCGTGTTTCTTCTGCATGTGC +ambiguous_consensus 4754 4776 SARS-CoV-2_32_LEFT_1 1 + ACCATCTCACTTGCTGGTTCCT +ambiguous_consensus 5509 5530 SARS-CoV-2_32_RIGHT_1 1 - AGGGTTGTCTGYTGTTGTCCA +ambiguous_consensus 5774 5798 SARS-CoV-2_33_LEFT_1 1 + ACTTTGTATTGCATAGAYGGTGCT +ambiguous_consensus 6516 6539 SARS-CoV-2_33_RIGHT_1 1 - AAGCAGCCATTAGATCTGTRTGG +ambiguous_consensus 6978 7001 SARS-CoV-2_34_LEFT_1 1 + CTCAACYGCTGCTTTAGGTGTTT +ambiguous_consensus 7726 7749 SARS-CoV-2_34_RIGHT_1 1 - TGRATGGAACCATTCTTCACTGT +ambiguous_consensus 8152 8173 SARS-CoV-2_35_LEFT_1 1 + GCTCGGCAAGGGTTTGTTGAT +ambiguous_consensus 8847 8869 SARS-CoV-2_35_RIGHT_1 1 - GCGTAATATCGTGCCAGGCAAA +ambiguous_consensus 9199 9223 SARS-CoV-2_36_LEFT_1 1 + CACGGYACTTGTGAAAGATCAGAA +ambiguous_consensus 9926 9948 SARS-CoV-2_36_RIGHT_1 1 - GCRAGATGACAACAAGCAGCTT +ambiguous_consensus 10056 10080 SARS-CoV-2_37_LEFT_1 1 + CCCATCTGGTAAAGTTGAGGGTTG +ambiguous_consensus 10793 10815 SARS-CoV-2_37_RIGHT_1 1 - ACGGCAATTCCAGTTTGAGCAG +ambiguous_consensus 11199 11223 SARS-CoV-2_38_LEFT_1 1 + GGTCTATATGCCTGYTAGTTGGGT +ambiguous_consensus 11897 11918 SARS-CoV-2_38_RIGHT_1 1 - ACTGGACACATTGAGCCCACA +ambiguous_consensus 12391 12415 SARS-CoV-2_39_LEFT_1 1 + GCAAGAGATGGTTGTGTTCCYTTG +ambiguous_consensus 13137 13158 SARS-CoV-2_39_RIGHT_1 1 - GCCTGACCAGTACCAGTRTGT +ambiguous_consensus 13451 13473 SARS-CoV-2_40_LEFT_1 1 + TGTAAGTGCAGCCCGTCTTACA +ambiguous_consensus 14154 14176 SARS-CoV-2_40_RIGHT_1 1 - ACTCTGCAGTTAAAGCCCTGGT +ambiguous_consensus 14592 14614 SARS-CoV-2_41_LEFT_1 1 + ACGTGCTTTTCAGTAGCTGCAC +ambiguous_consensus 15313 15335 SARS-CoV-2_41_RIGHT_1 1 - TTGCGAGCAAGAACAAGTGAGG +ambiguous_consensus 15504 15525 SARS-CoV-2_42_LEFT_1 1 + CAAGCTGTCACGGCCAATGTT +ambiguous_consensus 16211 16233 SARS-CoV-2_42_RIGHT_1 1 - AAAGAACACAAGCCCCAACAGC +ambiguous_consensus 16544 16566 SARS-CoV-2_43_LEFT_1 1 + TGTGAYTGGACAAATGCTGGTG +ambiguous_consensus 17296 17318 SARS-CoV-2_43_RIGHT_1 1 - ATCTRCTGTCGTCTCAGGCAAT +ambiguous_consensus 17535 17557 SARS-CoV-2_44_LEFT_1 1 + GGCGTTGTCCTGCTGAAATTGT +ambiguous_consensus 18264 18286 SARS-CoV-2_44_RIGHT_1 1 - ACATCGAAGCCAATCCATGCAC +ambiguous_consensus 18648 18669 SARS-CoV-2_45_LEFT_1 1 + GACGTGCCACATGCTTTTCCA +ambiguous_consensus 19353 19377 SARS-CoV-2_45_RIGHT_1 1 - GAGACTCACATGGACTGTCAGAGT +ambiguous_consensus 19818 19839 SARS-CoV-2_46_LEFT_1 1 + TGGGTGTGGACATTGCTGCTA +ambiguous_consensus 20583 20607 SARS-CoV-2_46_RIGHT_1 1 - CATGGCCATCTTTACACCAAAGCA +ambiguous_consensus 20863 20884 SARS-CoV-2_47_LEFT_1 1 + AGTTGCACCAGGTACAGCTGT +ambiguous_consensus 21559 21583 SARS-CoV-2_47_RIGHT_1 1 - CACACTGACTAGAGACTAGTRGCA +ambiguous_consensus 21858 21882 SARS-CoV-2_48_LEFT_1 1 + GATTCGAAGACCCAGTCMCTACTT +ambiguous_consensus 22563 22587 SARS-CoV-2_48_RIGHT_1 1 - CAACACAGTTGCTGATTCTCKTCC +ambiguous_consensus 23040 23064 SARS-CoV-2_49_LEFT_1 1 + CTTTTGAACTTCTACATGCAYCAG +ambiguous_consensus 23728 23752 SARS-CoV-2_49_RIGHT_1 1 - TTGCTGCATTCARTTGAATCACCA +ambiguous_consensus 23979 24001 SARS-CoV-2_50_LEFT_1 1 + CACTTGCAGATGCTGGCTTCAT +ambiguous_consensus 24724 24746 SARS-CoV-2_50_RIGHT_1 1 - ACAAATGGCAGGAGCAGTTGTG +ambiguous_consensus 24990 25014 SARS-CoV-2_51_LEFT_1 1 + TTGATTTAGGTGACATCTCTGGCA +ambiguous_consensus 25709 25731 SARS-CoV-2_51_RIGHT_1 1 - GCATTTCCAGCAAAGCCAAAGC +ambiguous_consensus 26136 26158 SARS-CoV-2_52_LEFT_1 1 + ACGACTACTAGCGTGCCTTTGT +ambiguous_consensus 26877 26899 SARS-CoV-2_52_RIGHT_1 1 - AYGAAGGATCACAGCTCCGATT +ambiguous_consensus 27386 27410 SARS-CoV-2_53_LEFT_1 1 + CACTACCAAGAGTGTGTTAGAGGT +ambiguous_consensus 28115 28138 SARS-CoV-2_53_RIGHT_1 1 - ACAACGCACTACAAGACTACCCA +ambiguous_consensus 28402 28423 SARS-CoV-2_54_LEFT_1 1 + TCGAGGACAAGGCGTTCCAAT +ambiguous_consensus 29140 29161 SARS-CoV-2_54_RIGHT_1 1 - ATGCGCGACATTCCGAAGAAC diff --git a/primerschemes/varvamp-sars-cov-2/700/v1.0.0/reference.fasta b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/reference.fasta new file mode 100644 index 0000000..a851a7b --- /dev/null +++ b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/reference.fasta @@ -0,0 +1,499 @@ +>ambiguous_consensus +ATTAAAGGTTTATACCTTCCCAGGTAACAAACCAACCAACTTTYGATCTCTTGTAGATCT +GTTCTCTAAACGAACTTTAAAATCTGTGTGGCTGTCACTCGGCTGCATGCTTAGTGCACT +CACGCAGTATAATTAATAAYTAATTACTGTCGTTGACAGGACACGAGTAACTCGTCTATC +TTCTGCAGGCTGYTTACGGTTTYKTCCGTKTTGCAGCCGATCATCAGCACATCTAGGTTT +YGTCCGGGTGTGACCGAAAGGTAAGATGGAGAGCCTTGTCCCTGGTTTCAACGAGAAAAC +ACACGTCCAACTCAGTTTGCCTGTTTTACAGGTTCGCGACGTGCTCGTACGTGGCTTTGG +AGACTCCGTKGAGGARGTCTTATCRGAGGCACGTCAACATCTTARARATGGCACTTGTGG +CTTAGTAGAAGTTGAAAAAGGCGTTTTGCCTCAACTTGAACARCCCTATGTGTTCATCAA +ACGTTCGGATGCTCGAACTGCACCTCANNTGAKCTGGTAGCAGAACTCGAAGGCATTCAG +TACGGTCGTAGTGGTGAGACACTTGGTGTYCTTGTCCCTYATGTGGGYGAAATACCAGTG +GCTTACCRCAAKGTTYTTCTTCGTAAGAACGGTAATAAAGGAGCTGGTGGCCATAGKTAC +GGCGCCGATCTANGACTTAGGCGACGAGCTTGGCACTGATCCTTATGAAGATTTTCAAGA +AAACTGGAACACTAAACATAGCAGTGGTGTTACCCGTGAACTCATGCGTGAGCTTAACGG +AGGGGCATACACTCGCTATGTCGATAAYAAYTTCTGTGGCCCTGATGGCTACCCTCTTGA +GTGCATTAAAGACCTTCTAGCAYGTGCTGGTAAAGYTTCATGCACTTTGTCYGAACAAYT +GGACTTTATTGACAYTAAGAGGGGTGTATACTGCTGCCGYGAACATGAGCATGAAATTGC +TTGGTACACGGAACGTTCTGAAAAGAGCTATGAATTGCAGACACCTTTTGAAATTAAATT +GGCAAAKAAATTTGACACCTTCAATGGGGAATGTCCAAATTTTKTATTTCCCTTAAATTC +CATAATCAAGACTATTCAACCAAGGGTTGAAAAGAAAAAGCTTGATGGCTTTATGGGTAG +AATTCGATYTGTCTATCCAGTTGCGTCACYAAATGAATGCAACCAAATGTGCCTTTCAAC +TCTCATGARGTGTGATCATTGTGGTGAAACTTCATGGCAGACGGGYGATTTTGTTAAAGC +CACTTGYGAATTTTGTGGCACTGAGAATTTGACTAAAGMAGGTGCCACTACTTGTGGTTA +CTTACCCCAAAATGCTGTTGTTAAAATTTATTGTCCAGCATGTCACAATTCAGAAGTAGG +ACYTGAGCATAGTCTTGCCGAATACYATAATGAATYTGGCTTGAAAACCATYCTTCGTAA +GGGTGGTCGYACTATTGCCTTTGGAGGCTGTGTGTTCTCTTATGTTGGTTGCYATAACAA +GTGTGCCTATTGGGTTCCACGTGYTAGCGCTAACATAGGTTGTAACCATACAGGTGTTGT +TGGAGAAGGTTYCGAAGGTCTTAATGACAACCTTCTTGRAATACTYCAAAAAGAGAAAGT +CAACATCAATRTTGTTGGTGACTTTAAAYTTAATGAAGAGATYGCCATTATTTTGGCATC +TTTTTCTGCTTCCACAAGTGCTTTTGTGGAAACTGTGAAAGGTTTGGATTAYAAAGYATT +CAAACAAATTGTTGAATYCTGTGGTAATTTTAAAGTTACAAAAGGAAAAGCTAAAAAARG +TGCCTGGAATATTGGTGAACAGAAATCAATACTGAGTCCTCTTTATGCATTTGCATCAGA +GGYTGCTCGTGTTGTACGATCAATTTTCTCYCGYACTCTTGAAACTGCTMAAAATTCTGT +GCGTGTTTTACAGAAGGCCGCTATAACAATACTAGATGGAATTTCACAGTATTCACTGAG +ACTCATTGATGCTATGATGTTCACATCTGATTTGGCTACTAACAATCTAGTTGTAAYGGY +CTACATTACAGGTGGTGTTGTTCAGTTGACTTCGCAGTGGCTAACTAACATCTTTGGCAC +TGTTTAYGAAAAACTCAAACCCRTCCTTGATTGGCTTGAAGAGAAGTTTAAGGAAGGTGT +AGAGTTTCTTAGAGACGGTTGGGAAATTGTTAAATTTATCTCAACCTGTGCTTGTGAAAT +TGTCGGTGGACAAATTGTCACCTGTGCAAAGGAAATTAAGGAGAGTGTTCAGACATTCTT +TAAGCTTGTAAATAAATTTTTGGCTTTGTGTGYTGACTCTATCATTATTGGTGGAGCTAA +ACTTAAAGCCTTGAATTTAGGTGAAACATTTRTCACGCACTCAAAGGGATTGTAYAGAAA +GTGTGTTAAATCCAGAGAAGAAAYTGGCCTACTYATGCCTCTAAAAGCYCCAAAAGAAAT +TATCTTCTTAGARGGAGAAACACTTCCYACAGAAGTKTTAACAGAGGAAGTTGTCTTGAA +AACTGGTGATTTACAACCATTAGAACAACCTACTAGTGAAGCTGTTGAAGCTCCATTGGT +TGGTACACCAGTTTGTATTAACGGGCTTATGTTGCTCGAAATCAAAGACACAGAAAAGTA +CTGTGCCCTTGCACCTAATATGATGGTAACAAAYAAYACCTTCACACTYAAAGGCGGTGC +ACCAACAAAGGTTACTTTTGGTGATGACACTGTGATAGAAGTGCAAGGTTACAAGAGTGT +GAATATCAYTTTTGAACTTGATGAAAGGATTGATAAAGTACTTAATGAGARGTGCTCTGC +YTATACAGTTGAACTCGGTACAGAAGTAAATGAGTTCGCCTGTGTTGTGGCAGATGCTGT +CATAAAAACTTTGCAACCAGTATCTGAATTACTTACACCACTRGGCATTGATYTAGATGA +GTGGAGTATGGYTACATACTACTTATTTGATGAGTCTGGTGAGTTTAAATTGGCTTCACA +TATGTATTGTTCTTTTTAYCCTCCAGATGAGGATNGAAGAAGAAGGTGATTRTGAAGAAG +AAGAGTTTGAGCCATYAACTCAAYATGAGTATGGTACTGAAGATGATTAYCAAGGTAAAC +CTTTGGAATTTGGTGCCACTTCTGCTGCTCTTCAAYCTGAAGAAGAGCAAGAAGAAGATT +GGTTAGATGATGATAGTCAACAAACTGTTGGTCAACAAGAYRGCAGTGAGGACAATCAGA +CAACTAYTATTCAAACAATTGTTGAGGTTCAACCTCAATTAGAGATGGAACTTACACCAG +TTGTTCAGAYTATTGAAGYGAATAGTTTTAGTGGTTATTTAAAACTTACTGACAATGTAT +ACATTAAAAATGCAGACATTGTGGAAGAAGCTAAAAAGGTAAAACCAACAGTGGTTGTTA +ATGCARCCAATGTTTACCTTAAACATGGAGGAGGTGTTGCAGGAGCCTTAAATAAGGCTA +CTAACAATGCCATGCAAGTTGAATCTGATGATTACATAGCTACTAATGGACCACTTAAAG +TGGGTGGTAGTTGTGTTTTAAGCGGACAYAATCTTGCTAAACACTGTCTTCATGTTGTCG +GCCCAAATGTTAACAAAGGTGAAGACATTCAACTTCTTAAGAGTGCTTATGAAAATTTTA +ATCAGCACGAAGTTCTACTTGCACCATTATTATCAGCTGGTATTTTTGGTGCTGACCCTA +TAYATTCTTTAAGAGTTTGTGTAGATAYTGTTCGCACAAATGTCTAYTTARCTGTYTTTG +ATAAAAATCTCTATGACAAACTTGTTTCAAGCTTTTTGGAAATGAAGAGTGAAAAGMRRG +TTGAACAAAAGATCGCTGAGATTCCTAAAGAGGAAGTTAAGCCATTTATAACTGAAAGTA +AACCTTYAGTTGAACAGAGAAAACAAGRTGATAAGAAAATCAAAGCTTGTGTTGAAGAAG +TTACAACAACTCTGGAAGAAACTAAGTTCCTCACAGAAAACTTGTTACTTTATATWGACA +TTAATGGCAATCTTCATCCAGATTCTGCCACTCTTGTTAGTGACATTGACATCACTTTCT +TAAAGAAAGATGCTCCATATATAGTGGGTGATGTTGTTCAAGAGGGTGTTTTAACTGCTG +TGGTTATACCTACTAAAAAGKCTRGTGGCACTACTGAAATGCTAGCGAAAGCTTTGAGAA +AAGTGCCAACAGAYAATTATATAACCACTTACCCGGGTCAGGGTTTAAATGGTTAYACTG +TAGAGGAGGCAAAGACAGTGCTTAAAAAGTGTAAAAGTGCYTTTTACATTCTACCATCTA +TTATCTCTAATGAGAAGCAAGAAATTCTTGGAACTGTTTCTTGGAATTTGCGAGAAATGC +TWGCACATGCAGAAGAAACACGCAAATTAATGCCYGTCTGTGTGGAAACTAAAGCYATAG +TTTCAACTATACAGCGTAAATATAAGGGTATTAAAATACAAGAGGGTGTGGTTGATTATG +GTGCTAGATTTTACTTTTACACCAGTAAAACAACTGTAGCGTCACTTATCAACACWCTWA +ACGATYTAAATGAARCTCTTGTTACAATGCCACTTGGCTATGTAACACATGGCTTAAATT +TGGAAGAAGCTGCTCGGTATATGAGATCTCTCAAAGTGCCAGCTACAGTTTCTGTTTCTT +CACCTGATGCTGTTACAGCGTATAATGGTTATCTTACTTCTTCTTCTAAAAYACCTGAAG +AAYATTTTATTGAAACCATCTCACTTGCTGGTTCCTATAAAGATTGGTCCTATTCTGGAC +AATCTACACAACTAGGTATAGAATTTCTTAAGAGAGGTGATAAAAGTGTATATTACACTA +GTAATCCTACCAYATTCCACCTAGAYGGTGAAGTTATCACCTTTGACAATCTTAAGACAC +TTCTTTCTTTGAGAGAAGTGAGGACTATTAAGGTGTTTACAACAGTAGACAACATTAACC +TCCACACGCAAGTTGTGGACATGTCAATGACATATGGACAACAGTTTGGTCCAACTTATT +TGGATGGAGCTGATGTTACTAAAATAAAACCTCATAATTCACATGAAGGTAAAACATTTT +ATGTTTTACCTAATGATGACACTCTACGTGTTGAGGCTTTTGAGTACTACCACACAACTG +ATYYTAGTTTTYTGGGTAGGTACATGTCAGCATTAAATCACACTAAAAAGTGGAAATACC +CACAAGTTAATGGTTTAACTTCTATTAAATGGGCAGATAACAAYTGTTATCTTGCCACTG +CATTGTTAACACTCCAACAAATAGAGTTGAAGTTTAATCCACCTGCTCTACAAGATGCTT +ATTACAGAGCAAGGGCTGGTGAAGCKGCTAACTTTTGTGCACTTAYCTTAGCCTACTGTA +ATAAGACAGTAGGTGAKTTAGGTGATGTTAGAGAAACAATGAGTTACTTGTTTCAACATG +CCAATTTAGATTCTTGCAAAAGAGTCTTGAAYGTGGTGTGTAAAACTTGTGGACAACARC +AGACAACCCTTAAGGGTGTAGAAGCTGTTATGTACATGGGCACRCTTTCTTATGAACAAT +TTAAGAAAGGTGTTCAGATACCTTGTACGTGTGGTAAACAAGCTACAAAATATCTAGTAC +AACAGGAGTCACCTTTTGTTATGATGTCAGCACCACCTRCTCAGTATGAACTTAAGCATR +GTACATTTAYTTGTGCTAGTGAGTACACTGGTAATTACCAGTGTGGTCAYTATAAACATA +TAACTTCTAAAGAAACTTTGTATTGCATAGAYGGTGCTTTACTTACAAAGTCCTCAGAAT +ACAAAGGTCCTATTACGGATGTTTTCTAYAAAGAAAACAGTTACACAACAACCATAAAAC +CAGTTACTTATAAATTGGATGGTRTTGTTTGTACAGAAATTGACCCTAAGTTGGACAATT +ATTATAAGAAAGACAATTCTTATTTCACAGAGCAACCAATTGATCTTGTACCAAACCAAC +CATATCCAAACGCAAGCTTYGATAATTTTAAGTTTGTATGTGATAATATYAAATTTGCTG +ATGATTTAAACCAGTTAACTGGTTATAAGAAACCTGCTTCAAGAGAGCTTAAAGTTACAT +TTTTCCCTGACTTAAATGGTGATGTGGTGGCTATTGATTATAAACACTACACACCYTCTT +TTAAGAAAGGAGCTAAATTGTTACATAAACCTATTGTTTGGCATGTTAACAATGCAACTA +ATAAAGCCACGTATAAACCAAATAYCTGGTGTATACGTTGTCTTTGGAGYACAAAACCAG +TTGAAACATCAAATTCGTTTGATGTACTGAAGTCAGAGGACGCGCAGGGAATGGATAATC +TTGCCTGCGAAGATCTAAAACYAGTCTYTGAAGAAGTAGTKGAAAATCCTACCATACAGA +AAGACGTTCTTGAGTGTAATGTGAAAACTACCGAAGTTGTAGGAGACATTATACTTAAAC +CAGCAAATAATANNTAAAAATTACAGAAGAGGTTRGCCAYACAGATCTAATGGCTGCTTA +TGTAGACAATTYTAKTCTTACTATTAASAAACCTAATGAATTATCTAGAGTATTAGGTTT +KAAAACCCTTGCTAYTCATGGTTTAGCTGCTGTTAATAGTGTCCCTTGGGATACTATAGC +TAATTATGCTAAGCCTTTYCTTAACAAAGTTGTTAGTACAACTACTAACATAGTTACAYG +GTGTTTAAACCGTGTTTGTACTAATTATRTGCCTTATTTCTTTAYTTTATTGCTACAATT +GTGTACTTTTACTAGAAGTRCAAATTCTAGAATTAAAGCATCTATGCCGACTACTATAGC +AAAGAATACTGTTAAGAGTGTCGGTAAATTTTGTCTAGAGGCTTCATTTAATTATTTGAA +GTCACCTAATTTTTCTAAACTGATAAATATTATAATTTGGTTTTTACTATTAAGTGTKTG +CCTAGGTTCTTTAATCTACTCAACYGCTGCTTTAGGTGTTTTAATGTCTAATTTAGGCAT +GCCTTCTTACTGTACTGGTTACAGAGAAGGCTATTTGAACTCTACTAATRTCACTATTGC +AACCTACTGTACTGGTTCTATAYCTTGTAGTGTTTGTCTTAGTGGTTTAGATTCTTTAGA +CACCTATCCTTCTTTAGAAACTATACAAATTACCATTTCATCTTTTAAATGGGATTTAAC +TGCTTTTGGCTTAGTTGCAGAGTGGTTTTTGGCATATATTCTTTTCACTAGGTTTTTCTA +TGTACTTGGATTGGCTGCAATCATGCAATTGTTTTTCAGCTATTTTKCAGTACATTTTAT +TAGTAATTCTTGGCTTATGTGGTTAATAATTAATCTTGTACAAATGGCMCCGATTTCAGC +TATGGTTAGAATGTACATCTTCTTTGCATCATTTTATTATGTATGGAAAAGTTATGTGCA +TGTTGTAGACGGTTGTAATTCATCAACTTGTATGATGTGTTACAAACGTAATAGAGCAAC +AAGAGTYGAATGTACAACTATTGTTAATGGTGTTAGAAGGTCCTTTTATGTCTATGCTAA +TGGAGGTAAAGGCTTTTGCAAACTACACAATTGGAATTGTGTTAATTGTGAYACATTCTG +TGCTGGTAGTACATTTATTAGTGATGAAGTTGCGAGAGACTTGTCACTACAGTTTAAAAG +ACCAATAAATCCTACTGACCAGTCTTCTTACATYGTTGATAGTGTTACAGTGAAGAATGG +TTCCATYCATCTTTACTTTGAYAAAGCTGGTCAAAAGACTTATGAAAGACATTCTCTCTC +TCATTTTGTTAACTTAGACAACCTGAGAGYTAATAACACTAAAGGTTYATTGCCTATTAA +TGTTATAGTTTTTGATGGTAAATCAAAATGTGAAGAATCATCTGCAAAATCAGCGTCTGT +TTACTACAGTCAGCTTATGTGTCAACCTATACTGTTACTAGATCAGGCATTAGTGTCTGA +TGTTGGTGATAGTGCGGAAGTTGCAGTTAAAATGTTYGATGCTTACGTTAATACGTTTTC +ATCAACTTTTAACGTACCAATGGAAAAACTCAAAACACTAGTTGCAACTGCAGAAGCTGA +ACTTGCAAAGAATGTGTCYTTAGACAATGTCTTATCTACTTTTATTTCAGCAGCTCGGCA +AGGGTTTGTTGATTCAGATGTAGAAAYTAAAGATGTTGTTGAATGTCTTAAATTGTCACA +TCAATCTGAYATAGAAGTTACTGGCGATAGTTGTAATAACTATATGCTCACCTATAACAA +AGTTGAAAACATGACACCCCGTGACCTTGGTGCTTGTATTGACTGTAGTGCGCGTCATAT +TAATGCGCAGGTAGCAAAAAGTCACAAYATTRCTTTGATATGGAACGTTAAAGATTTCAT +GTCATTGTCTGAACAACTACGAAAACAAATACGTAGTGCTGCTAAAAAGAATAACTTACC +TTTTAAGTTGACATGTGCAACTACTAGACAAGTTGTTAATGTTGTAACAACAAAGATAGC +ACTTAAGGGTGGTAAAATTGTTAATAATTGGTTGAAGCAGTTAATTAAAGTTAYACTTGT +RTTYCTTTTTGTTGCTGCTATTTTCTATTTAATAACACCTGTTCATGTCATGTCTAAACA +TACTGACTTTTCAAGTGAAATCATAGGATAYAAGGCTATTGATGGTGGTGTCACTCGYGA +CATAGCATCTACAGATACTTGTTTTGCTAACAAACATGCTGATTTTGACACATGGTTTAG +CCAGCGTGGTGGTAGTTATACTAATGACAAAGCTTGCCCATTGATTGCTGCAGTCATAAC +AAGAGAAGTGGGTTTTGTCGTGCCTGGTTTGCCTGGCACGATATTACGCACAACTAATGG +TGACTTTTTGCATTTCTTACCTAGAGTTTTTAGTGCAGTTGGTAAYATCTGTTACACACC +ATCAAAACTTATAGAGTACACTGAYTTTGYAACATCAGCTTGTGTTTTGGCTGCTGAATG +TACAATTTTTAAAGATGCTTCTGGTAAGCCAKTACCATATTGTTATGATACYAATGTACT +AGAAGGTTCTGTTGCTTATGAAAGTTTACGCCCTGACACACGTTATGTGCTCATGGATGG +CTCTATTATTCAATTTCCTAACACCTACCTTGAAGGTTCTGTTAGAGTGGTAACAACTTT +TGATTCTGAGTACTGTAGRCACGGYACTTGTGAAAGATCAGAAGCTGGTGTTTGTGTATC +TACTAGTGGTAGATGGGTACTTAAYAATGATTATTACAGATCTTTACCAGGAGTTTTCTG +TGGTGTAGATGCTGTAAATTTAYTTACTAATATGTTTACACCACTAATTCAACCTATTGG +TGCTTTGGACATATCAGCATCTATAGTAGCTGGTGGTRTTGTRGCTATYGTAGTAACATK +CCTTGCCTACTATTTTATGAGGTTTAGAAGAGCTTTTGGTGAATACAGTCATGTAGTTGC +CTTTAATACTTTACTATTCCTTATGTCATTYAYTGTACTCTGTTTAACACCAGTTTAYTC +ATTCTTACCTGGTGTTTATTCTGTTATTTACTTGTACTTGACATTTTATCTTACTAATGA +TGTTTCTTTTTTAGCACATATTCAGTGGATGGTTATGTTCACACCTTTAGTACCTTTCTG +GATAACAATTGYTTATATCATTTGTATTTCCACAAAGCATTTCTATTGGTTCTTTAGTAA +TTACCTAAAGAGACRTGTAGTCTTTAATGGTGTTTCCTTTAGTACTTTTGAAGAAGCTGC +RYTGTGCACCTTTTTGTTAAATAAAGAAATGTATCTAAAGTTGCGTAGTGATGTGCTATT +ACCTYTTACGCAATATAATAGATACTTAGYTCTTTATAATAAGTACAAGTATTTTAGTGG +AGCAATGGATACAACTAGCTACAGAGAAGCTGCTTGTTGTCATCTYGCAAAGGCTCTCAA +TGACTTCAGTAACTCAGGTTCTGATGTTCTTTACCAACCACCACAAAYCTCTATCACCTC +AGCTGTTTTGCAGAGTGGTTTTAGAAAAATGGCATTCCCATCTGGTAAAGTTGAGGGTTG +TATGGTACAAGTAACTTGTGGTACAACTACACTYAAYGGTMTTTGGCTTGATGACGTAGT +TTACTGTCCAAGACATGTGATCTGCAMYTCTGAAGAYATGCTYAACCCTAATTATGAAGA +TTTACTYATTCGTAAGTCTAATCATAATTTCTTGGTACAGGCTGGTAATGTTCAACTCAG +GGTTATTGGACATTCTATGMAAAATTGTGTACTTAAGCTTARGGTTGATACAGCCAATCC +TAAGACACCTAAGTATAAGTTTRTTCGCATTCAACCAGGACAGACTTTTTCAGTGTTRGC +TTGTTACAATGGTTCACCATCTGGTGTTTACCAATGTGCTATGAGRCMCAATTTCACTAT +TAAGGGTTCATTCCTTAATGGTTCATGTGGTAGTGTTGGTTTTAAYATAGATTATGACTG +TGTCTCTTTTTGTTACATGCACCATATGGAATTACCAACTGGAGTTCATGCTGGCACAGA +CTTAGAAGGTAACTTTTATGGACCTTTTGTTGAYAGGCAAACAGCACAAGCAGCTGGTAC +GGACACAACTATTACAGTTAATGTTTTAGCTTGGTTGTACGCTGCTGTTATAAATGGAGA +CAGGTGGTTTCTCAATCGAYTTACCACAACTCTTAATGACTTTAACCTTGTGGCTATGAA +GTACAATTATGAACCTCTAACACAAGACYATGTTGAYATACTAGGACCTCTTTCTGCTCA +AACTGGAATTGCCGTTTTAGATATGTGTGCTTCATTAAAAGAATTACTGCAAAATGGTAT +GAATGGACGTACCATATTGGGTAGTGYTTTATTAGAAGATGAATTTACACCTTTTGATGT +TGTTAGACAATGCTCAGGTGTTACTTTCCAAAGTGYAGTGAAAAGAACAATCAAGGRTAC +ACACCACTGGTTGTTACTCACAATTTTGACTTCACTTTTAGTTTTAGTCCAGAGTACTCA +ATGGTCTTTGTTCTTTTTTTTGTATGAAAATGCCTTTTTACCTTTTGCTATGGGTATTAT +TGCTATGTCTGCTTTTGCAATGATKTTTGTCAAACATAAGCATGCATTTCTYTGTTTGTT +TTTGTTACCTTCTCTTGCCRCTGTAGCTTATTTTAATATGGTCTATATGCCTGYTAGTTG +GGTGATGCGTATTATGACATGGTTGGATATGGTTGATACTANNGTTTKNAAGCTAAAAGA +CTGTGTTAYGTATGCATCAGCTGTRGTGTTACTAATCCTTATGACAGYAAGAACTGTKTA +TGATGATGGTGCTAGGAGAGTGTGGACACTTATGAATGTCTTGACACTCKYTTATAAAGT +TTATTATGGTAATGCTTTAGATCAAGCCATTTCCATGTGGGCTCTTATAATCTCTGTTAC +TTCTAAYTACTCAGGTGTAGTTACAAYYGTCATGTTTTTGGCCAGAGGTRTTGTTTTTAT +GTGTGTTGAGTATTGCCCTATTTTCTTYATAACTGGTAATACACTTCRGTGTATAATGCT +AGTTTATTGTTTCTTAGGCTATTTTTGTACTTGTTACTTTGGCCTCTTTTGTTTACTCAA +CCGCTAYTTTAGACTGACTCTTGGTGTTTATGATTACTTAGTTTCTACACAGGAGTTTAG +ATATATGAATTCACAGGGACTAYTCCCACCYAAGAATAGCATAGATGCCTTCARACTCAA +CATTAAATTGTTGGGTGTTGGTGGCAAACCTTGTATYAAARTAGCCACTGTACAGTCTAA +AATGTCAGATGTAAAGTGCACATCAGTAGTCTTACTCTCAGTTTTGCAACAACTCAGAGT +AGAATCATCATCTAAATTGTGGGCTCAATGTGTCCAGTTACACAATGAYATTCTCTTAGC +TAAAGATACTACTGAAGCCTTTGAAAAAATGGTTTCACTACTTTCTGTTTTGCTTTCCAT +GCRGGGTGCTGTAGACATAAAYAAGCTTTGTGAAGAAATGCTGGAYAACAGGGCAACCTT +ACAAGCTATAGCCTCAGAGTTTAGTTCCCTTCCATCATATGCAGCTTTTGCTACTGCTCA +AGAAGCTTATGARCARGCTGTTGCTAATGGTGATTCTGAAGTTGTTCTTAAAAAGTTGAA +GAAGTCTTTGAATGTGGCTAAATCTGAATTTGACCGTGATGCAGCCATGCAACGTAAGTT +GGAAAAGATGGCTGATCAAGCTATGACCCAAATGTATAAACARGCTAGATCTGAGGACAA +GAGGGCAAAAGTTACTAGTGCTATGCAGACAATGCTTTTCACTATGCTTAGAAAGTTGGA +TAATGATGCACTCAACAACATTATCAACAATGCAAGAGATGGTTGTGTTCCYTTGARCAT +AATACCTCTTACAACAGCAGCCAAACTAATGGTTGTCATACCAGACTATAACACATATAA +AAATAYGTGTGATGGTACAACATTTACTTATGCATCAGCATTGTGGGAAATCCAACAGGT +TGTAGAYGCAGATAGTAAAATTGTTCAACTTAGTGAAATTAGTATGGAYAATTCACCTAA +TTTAGCATGGCCTCTTATTGTAACAGCTTTAAGGGCCAATTCTGCTGTCAAATTACAGAA +TAATGAGCTTAGTCCTGTTGCACTACGACAKATGTCTTGTGCWGCCGGTACTACACAAAY +TGCTTGCACTGATGACAATGCGTTAGCTTACTACAACAYAAYAAAGGGAGGTAGGTTTGT +ACTTGCACTGTTATCCGATTTACAGGATTTKAAATGGGCTAGATTYCCTAAGAGTGATGG +AACTGGTACTATYTATACAGAACTGGAACCACCTTGTAGGTTTGTTACAGACACACCTAA +AGGTCCTAAAGTGAAGTAYTTATACTTTATTAAAGGATTAAAYAACCTAAATAGAGGTAT +GGTACTTGGTAGTTTAGCTGCCACAGTACGTYTACAAGCTGGTAATGCAACAGAAGTGCC +TGCCAATTCAACTGTATTATCTTTCTGTGCTTTTGCTGTAGATGCTGCYAAAGCTTACAA +AGATTATCTAGCTAGTGGGGGACAACCAATCACTAATTGTGTTAAGATGTTGTGTACACA +YACTGGTACTGGTCAGGCAAYAACAGTYACACCGGAAGCCAATATGGATCAAGAATCCTT +TGGTGGTGCATCGTGTTGTCTGTACTGCCGTTGCCACATAGATCATCCAAATCCTAAAGG +ATTTTGTGACTTAAAAGGTAAGTATGTACAAATACCTACAAYTTGTGCTAATGAYCCTGT +GGGTTTTACACTTAAAAACACAGTCTGTACCGTCTGCGGTATGTGGAAAGGTTATGGCTG +TAGTTGTGATCAACTYCGCGAACCCATGCTTCAGTCAGCTGATGCACAATCGTTTTTAAA +CGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACTGAT +GTCGTATACAGGGCTTTTGACATCTACAATGATAAAGTAGCTGGTTTTGCTAAATTCCTA +AAAACTAATTGTTGTCGCTTCCAAGAAAAGGAYGAAGATRACAATTTAATTGATTCTTAC +TTTGTAGTTAAGAGACACACTTTCTCTAACTACCAACATGAAGAAACAATTTATAATTTA +CTTAAGGATTGTCCAGCTGTTGCTAAACATGACTTCTTTAAGTTTAGAATAGACGGTGAC +ATGGTACCACATATATCACGTCAACGYCTTACTAAATACACAATGGCAGACCTCGTCTAT +GCTTTAAGGCATTTTGATGAAGGTAATTGTGACACATTAAAAGAAATACTTGTCACATAC +AATTGTTGTGATGATGATTATTTCAATAAAAAGGACTGGTATGATTTTGTAGAAAACCCA +GATATATTACGCGTATACGCYAAYTTAGGTGAACGTGTACGCCAAGCTTTGTTAAAAACA +GTACAATTCTGTGATGCCATGCGAAATGCTGGTATTGTTGGTGTACTGACATTAGATAAT +CAAGATCTCAATGGTAACTGGTATGATTTCGGTGATTTCATACAAACCACGCCAGGTAGT +GGAGTTCCTGTTGTAGATTCTTATTATTCATTGTTAATGCCTATATTAACCTTGACCAGG +GCTTTAACTGCAGAGTCACATKTTGACACTGACTTAACAAAGCCTTACATTAAGTGGGAT +TTGTTAAAAYATGACTTCACGGAAGAGAGGTTAAAACTCTTTGACCGTTATTTTAAATAT +TGGGATCAGAYATAYCACCCAAATTGTGTTAACTGTTTGGATGACAGATGYATTCTGCAT +TGTGCAAACTTTAATGTTTTATTCTCTACAGTGTTCCCAYTTACAAGTTTTGGACCACTA +GTGAGAAAAATATTTGTTGATGGTGTTCCATTTGTAGTTTCAACTGGATACCACTTCAGA +GAGCTAGGTGTTGTACATAATCAGGATGTAAACTTACATAGCTCTAGACTTAGTTTTAAG +GAATTACTTGTGTATGCTGCTGACCCTGCTATGCACGCTGCTTCTGGTAATYTATTACTA +GATAAACGCACTACGTGCTTTTCAGTAGCTGCACTTACTAACAATGTTGCTTTTCAAACT +GTCAAACCCGGTAATTTTAACAAAGACTTCTATGACTTTGCTGTGTCTAAGGGTTTCTTT +AAGGAAGGAAGTTCTGTTGAATTAAAACACTTCTTCTTTGCTCAGGATGGTAATGCTGCT +ATCAGCGATTATGACTACTATCGTTATAATCTACCAACAATGTGTGATATCAGACAACTA +CTATTTGTRGTTGAAGTTGTTGATAAGTACTTTGATTGTTACGATGGTGGCTGTATTAAT +GCTAACCAAGTCATCGTYAACAACCTAGACAAATCAGCTGGTTTTCCATTTAATAAATGG +GGTAAGGCTAGACTTTATTATGATTCAATGAGTTATGAGGAYCAAGATGCACTTTTCGYA +TAYACAAAACGTAATGTCATCCCTACTATAACTCAAATGAATCTTAAGTATGCCATTAGT +GCAAAGAATAGAGCTCGCACCGTRGCTGGTGTCTCTATCTGTAGTACTATGACCAATAGA +CAGTTTCATCAAAAATTATTGAAATCAATAGCCGCYACTAGAGGAGCTACTGTAGTAATT +GGAACAAGCAAATTCTATGGTGGTTGGCAYAAYATGTTAAAAACTGTTTATAGTGATGTA +GAAAACCCTCAYCTTATGGGTTGGGATTATCCTAAATGTGATAGAGCCATGCCTAACATG +CTTAGAATTATGGCCTCACTTGTTCTTGCTCGCAAACATACAACKTGTTGTAGCTTGTCA +CACCGTTTCTATAGATTAGCTAATGAGTGTGCTCAAGTATTGAGTGAAATGGTCATGTGT +GGCRGTTCACTATATGTTAAACCAGGTGGAACCTCATCAGGAGATGCCACAACTGCTTAT +GCTAATAGTGTTTTTAACATTTGTCAAGCTGTCACGGCCAATGTTAATGCACTTTTATCT +ACTGATGGTAACAAAATTGCCGAYAAGTATGTCCGCAATTTACAACACAGACTTTATGAG +YGTCTCTATAGAAATAGAGATGTTGACACAGACTTTGTGAATGAGTTTTACGCATATTTG +CGTAAACATTTCTCAATGATGATACTYTCTGACGATGCTGTTGTGTGTTTYAATAGCACT +TATGCATCTCAAGGTCTAGTGGCTAGCATAAAGAACTTTAAGTCAGTTCTTTATTATCAA +AACAATGTTTTTATGTCTGAAGCAAAATGTTGGACTGAGACTGACCTTACTAAAGGACCT +CATGAATTTTGCTCKCAACATACAATGCTAGTTAAACAKGGNNTGATGATTATGTGTAYC +TTCCTTACCCAGAYCCATCAAGAATCMTAGGKGCYGGCTGTTTTGTAGATGATATCGTAA +AAACAGATGGTACACTTATGATTGAACGGTTCGTGTCTTTAGCTATAGATGCTTACCCAC +TTACTAAACATCCTAATCAGGAGTATGCTGATGTCTTTCATTTGTAYTTACAATACATAA +GAAAGCTACATGATGAGTTAACAGGACACATGTTAGACATGTATTCTGTTATGCTTACTA +ATGATAACACTTCAAGGTATTGGGAACCTGAGTTTTATGAGGCTATGTACACACCGCATA +CAGTCTTACAGGCTGTTGGGGCTTGTGTTCTTTGCAATTCACAGACTTCATTAAGATGTG +GTGCTTGYATACGTAGACCATTCTTATGTTGTAAATGYTGTTACGACCATGTCATAYCAA +CATCACATAAATTAGTCTTGTCTGTTAATCCGTATGTTTGCAATGCTYCAGGTTGTGATG +TCACAGATGTGACTCAACTTTACTTAGGAGGTATGAGCTATTATTGTAAATCACATAAAC +YACCCATTAGTTTTCCATTGTGTGCTAATGGACAAGTTTTTGGTTTATATAAAAATACAT +GTGTTGGTAGCGATARTGTTACTGACTTTAATGCAATTGCAACATGTGAYTGGACAAATG +CTGGTGATTACATTTTAGCTAACACCTGTAHYGAAAGACTCAAGCTTTTTGCAGCAGAAA +CGCTCAAAGCTACTGAGGAGACATTTAAACTGTCTTATGGTATTGCTACTGTACGTGAAG +TGCTGTCTGACAGAGAATTAYATCTTTCATGGGAAKTTGGTAAACCTAGACCACCACTTA +ACCGAAATTATGTCTTTACTGGTTATCGTGTAACTAAAAACAGTAAAGTACAAATAGGAG +AGTACACCTTTGAAAAAGGTGACTATGGTGATGCTGTTGTTTAYCGAGGTACWACAACTT +AYAAATTAAATGTTGGTGATTATTTTKTKCTGACATCACATACAGTAATRCCATTAAGTG +CACCTACAYTAGTGCCACAAGAGCACTATKTTAGAATTACTGGCTTATACCCAACACTCA +ATATYTCAGATGAGTTTTCTAGCAATGTTGCAARYTATCAAAAGGTTGGTATGCAAAAGT +ATTCTACACTCCAGGGACCACCTGGTACTGGTAAGAGTCATTTTGCTATTGGCCTAKCYC +TCTACTACCCTTCTGCTCGCATAGTGTATACAGCTTGCTCTCATGCCGCTGTTGATGCAC +TATGTGAGAAGGCATTAAAATATTTGCCTATAGATAAATGTAGTAGAATTRTACCTGCAC +GTGCTCGTGTAGAGTGTTTTGATAAATTCAAAKTGAATTYAACATTAGAACAGTATGTYT +TTTGTACTGTAAAYGCATTGCCTGAGACGACAGYAGATATAGTTGTCTTTGATGAAATTT +CAATGGCCACAAATTATGATTTGAGTGTTGTCAATGYCAGATTAYGTGCTAAGCACTATG +TGTACATTGGCGACCCTGCTCAATTACCTGCACCACGCACATTGCTAACTAAGGGCACAC +TAGAACCAGAATATTTCAATTCAGTGTGTAGACTTATGAAAACTATAGGTCCAGACATGT +TCCTCGGAACTTGTCGGCGTTGTCCTGCTGAAATTGTTGACACTGTGAGTGCTTTGGTTT +ATGATAATAAGCTTAARGCACATAAAGACAAATCAGCTCAATGCTTTAAAATGTTTTATA +AGGGTGTTATYAYGCATGATGTTTCATCTGCAATTAACAGGCCACAAATAGGCGTKGTAA +GAGAATTCCTTACACGTAACYYTGYTTGGAGAAAAGCTGTYTTTATTTCACCTTATAATT +CACAGAATGCTGTAGCCTCAAAGATTTTGGGACTACYAACTCAAACTGTTGATTCATCAC +AGGGCTCAGAATAYGACTATGTCATATTCACTCAAACCACTGAAACAGCTCACTCTTGTA +ATGTAAACAGATTTAATGTTGCTATTACCAGAGCAAAAGTAGGCATACTTTGYATAATGT +CTGATAGAGACCTTTATGACAAGTTGCAATTTACAAGTCTTGAAATTCCACGTAGGAATG +TGGCAACTTTACAAGCTGAAAATGTAACAGGACTCTTTAAAGATTGTAGTAAGKTAATCA +CTGGGTTACATCCTACACAGGCACCTACACACCTCAGTGTTGACACTAAATTCAAAACTG +AAGGTTTATGTGTTGACRTACCTGGCATACYTAAGGACATGACCTATAGAAGACTCATCT +CTATGATGGGTTTTAAAATGAATTATCAAGTTAATGGTTACCCTAAYATKTTTATCACCC +GCGAAGAAGCTATAAGACATGTACGTGCATGGATTGGCTTCGATGTCGAGGGGTGTCATG +CTACTAGAGAAGCTGTTGGTACCAATTTACCTTTACAGCTAGGTTTTTCTACAGGTGTTA +ACCTAGTTGCTGTACCTACAGGTTATGTTGATACACCTAATAATACAGATTTTTCCAGAG +TTAGTGCTAAACCACCGCCTGGAGATCAATTTAAACACCTCATACCRCTTATGTACAAAG +GACTTCCTTGGAATGTAGTGCGTATAAAGATTGTACAAATGTTAAGTGACACACTTAAAA +ATCTCTCTGACAGAGTCRTATTTGTCTTATGGGCACATGGCTTTGAGTTGACATCTATGA +AGTATTTTGTGAAAATAGGACCTGAGCGCACYTGTTGTCTATGTGATAGACGTGCCACAT +GCTTTTCCACTGCTTCAKACACTTATGCCTGTTGGCATCATTCTATTGGATTTGATTAYG +TYTATAATCCGTTTATGATTGATGTTCAACAATGGGGTTTTACAGGTAACCTACAAAGCA +ACCATGATCTGTATTGTCAARTYCATGGTAATGCACATGTAGCTAGTTGTGATGCAATCA +TGACTAGGTGTCTAGCTGTCCACGAGTGCTTYGTTAAGCGTGTTGACTGGACTATTGAAT +ATCCTATAATTGGTGATGAACTGAAGATTAAYGCGGCTTGTAGAAAGGTTCAACACATKG +TTGTTAAAGCTGCATTATTAGCAGAYAAATTYCCARTTCTTCACGACATTGGTAACCCTA +AAGCTATTAAGTGTGTACCTCAAGCTGATGTAGAATGGAAGTTCTATGATGCACAGCCTT +GTAGTGACAAAGCTTATAAAATAGAAGAATTATTCTATTCTTATGCCACACATTCTGACA +AATTCACARATGGTGTATGCCTATTTTGGAATTGCAATGTCGATAGATATCCTGYTAATT +CCATTGTTTGTAGATTTGACACTAGAGTGCTATCTAACCTTAACTTGCCTGGTTGTGATG +GTGGCAGTTTGTATGTAAATAAACATGCATTCCACACACCRGCTTTTGATAAAAGTGCTT +TTGTTAATTTAAAACAATTACCATTTTTCTATTACTCTGACAGTCCATGTGAGTCTCATG +GAAAACAAGTAGTGTCAGATATAGATTATGTACCACTAAAGTCTGCTACGTGTATAACAC +GTTGCAATTTAGGTGGTGCTGTCTGTAGACATCATGCTAATGAGTACAGATTGTATCTYG +ATGCTTATAACATGATGATCTCAGCTGGCTTTAGCTTGTGGGTTTACAAACAATTTGATA +CTTATAACCTCTGGAACACTTTTACAAGACTTCAGAGTTTAGAAAATGTGGCTTTTAATG +TTGTAAATAAGGGACACTTTGATGGACAACAKGGTGAAGTACCAGTTTCTATCATTAATA +ACACTGTTTACACAAAAGTTGATGGTGTTGATGTAGAATTGTTTGAAAATAAAACAACAT +TACCTGTTAATGTAGCATTTGAGCTTTGGGCTAAGCGCAACATTAARCCAGTACCAGAGG +TGAAAATACTCAATAATTTGGGTGTGGACATTGCTGCTAATACTGTGATCTGGGACTACA +RAAGAGATGCTCCAGCACATATATCTACTATTGGTGTTTGTTCTATGACTGACATAGCCA +AGAAACCAAYTGAAACKATTTGTGCACCACTCACTGTCTTTTTTGATGGTAGAGTTGATG +GTCAAGTAGACTTATTTAGAAATGCCCGTAATGGTGTTCTTATTACAGARGGTAKTGTTA +AAGGTTTACAACCATCTGTAGGTCCCAAACAAGCTAGTCTTAATGGAGTCACATTAATTG +GAGAAGCCGTAAAAACACAGTTCAATTATTATAAGAAAGTTGATGGTRTTGTYCAACAAT +TACCTGAAACTTACTTTACTCAGAGTAGAAATTTACAAGAATTTAAACCYAGGAGTCAAA +TGGAAATTGATTTCTTRGAATTAGCTATGGATGAATTYATTGAACGGTATAAATTAGAAG +GCTATGCCTTCGAACATATCGTTTATGGAGATTTTAGTCATAGTCAGTTAGGTGGTTTAC +ATCTACTGATTGGRCTAGCTAAACGTTTTAAGGAATCACYTTTTGAATTAGAAGATTTTA +TTCCTATGGACAGTACAGTTAAAAACTATTTCATAACAGATGCGCAAACAGGTTCATCTA +AGTGTGTGTGTTCTGTTATTGATTTATTACTTGATGATTTTGTTGARATAATAAAATCCC +AAGATTTATCTGTAGTTTCTAAGGTTGTCAAAGTGACTATTGACTATACAGAAATTTCAT +TTATGCTTTGGTGTAAAGATGGCCATGTAGAAACATTTTACCCAAAATTACAATCTAGTC +AAGCGTGGCAACCKGGTGTTGCTATGCCTAATCTTTACAAAATGCAAAGAATKCTATTAG +AAAAGTGTGACCTTCRAAATTATGGTGATAGTGCAAYATTACCTAAAGGCATAATGATGA +ATGTCGCAAAATATACTCAACTGTGTCAATATTTAAACACATTAACATTAGCTGTACCCT +ATAATATGAGAGTTATACATTTTGGTGCTGGTTCTGATAAAGGAGTTGCACCAGGTACAG +CTGTTTTAAGACAGTGGTTGCCTACGGGTACGCTGCTTGTCGATTCAGATCTTAATGACT +TTGTCTCTGATGCAGATTCAACTTTGATTGGTGATTGTGCAACTGTACATACAGCTAATA +AATGGGATCTCATTATTAGTGATATGTAYGACCCTAAGACTAAAAATGTTAYAAAAGAAA +ATGACTCTAAAGAGGGTTTTTTCAYTTACATTTGTGGGTTTATACAACAAARGCTAGCTC +TTGGAGGTTCCGTGGCTATAAAGATAACAGAACATTCTTGGAATGCTGATCTTTATAAGC +TCATGGGACACTTCGCATGGTGGACAGCCTTTGTTACTAATGTGAATGCBTCATCATCTG +AAGCATTTTTAATTGGATGTAATTATCTTGGCAAAMCACGCGAACAAATAGATGGTTATG +TCATGCATGCAAATTACATATTTTGGAGGAATACAAATCCAATTCAGTTGTCTTCCTATT +CTTTATTTGACATGAGTAAATTTCCCCTTAAATTAAGGGGTACTGCTGTTATGTCTTTAA +AAGAAGGTCAAATCAATGATATGATTTTATCTCTTCTYAGTAAAGGTAGACTTATAATTA +GAGAAAACAACAGAGTTGTTATTTCTAGTGATGTTCTTGTTAACAACTAAACGAACAATG +TTTGKTTTTYTTGTTTTATTGCYACTAGTCTCTAGTCAGTGTGNNTTAATYTTABAACYR +SAACTCAATNNCATACRCTAATTCTTTCACACGTGGTGTTTATTACCCTGACAAAGTTTT +CAGATCCTCAGTTTTACATTCAACTCAKGAYTTGTTCTTACCTTTCTTTTCCAATGTTAC +TYKGTTCCATGYTANNTCTCTGGGACCAATGGTAYTAAGAGGTTTGATAACCCTGYYMTA +CCATTTAATGATGGTGTTTATTTTGCTTCCAYTGAGAAGTCTAACATAATAAGAGGCTGG +ATTTTTGGTACTACTTTAGATTCGAAGACCCAGTCMCTACTTATTGTTAATAACGCTACT +AATGTTGTTATTAAAGTCTGTGAATTTCAATTTTNNACMWHRWWAMCAACRAAAGTYKGA +YDGAAAGTGNGAGTTTATTCTAGTGCGAAKAATTGCACTTTTGAATATGTCTCTCAGCCT +TTTCTTATGGACCTTGWAGKARAASAGGGTRMTYTYAAAAATCTTAGGGAATTTGTGTTT +AAGAATATTGATGGTTRTTTTAAAATATATTCTAAGCACACGCYTRTTANNYAGDGCGTN +NSATCTCCCTCAGGGTTTTTCGGYTTTAGAACCATTGGTAGATTTGCCAATAGGTATTAA +CATCACTAGGTTTCAAACTTTACTTGCTTTAMATAGAAGTHNMTTTGAYTCYTGKTGRTT +CTTYTTYARRTTGGACAGCTGKTKCTGCAGCTTATTATGTGGGTTATCTTCAACCTAGGA +CTTTTCTATTAAAATATAATGAAAATGGAACCATTACAGATGCTRTAGACTGTGCACTTG +ACCCTCTYTCAGAAACAAAGTGTACGTTGAAATCCTTYACTGTAGAAAAAGGAATYTATC +AAACTTCTAACTTTAGAGTCCAACCAACAGAATCTATTGTTAGATTTCCTAATATTACAA +ACTTGTGCCCTTTTSRTGAAGTTTTTAACGCCACCANHTTTKCATCTGTTTATGCTTGGA +AYAGGAMGAGAATCAGCAACTGTGTTGCTGATTATTCTGTCMTATATAATYYCGCAYCAT +TTTYCRCTTTTAAGTGTTATGGAGTGTCTCCTACTAAATTAAATGATCTCTGCTTTACTA +RTGTCTATGCAGATTCATTTGTAATTARAGGTRATGAAGTCAGMCAARTYGCTCCAGGGC +AAACTGGAAMKATTGCTGATTATAATTATAAATTACCAGATGATTTTACAGGYTGYGTTA +TAGCTTGGAATTCTAACAAKCTTGATTCTANKSYTRRTGGTAATWATRATTACMDGTATA +GATTKYTWAGGAAGTCTAADCTCAAACCTTTTGAGAGAGATATTTCAACTGAAATCTATC +AGGCCGGTARCAVACCTTGTAATGGTGTTRVAGGTNYTAATTGTTACYBTCCTTTACRAY +CATATRGTTTCCRACCCACTWATGGTGTTGGTYACCAACCATAYAGAGTAGTAGTACTTT +CTTTTGAACTTCTACATGCAYCAGCAACTGTTTGTGGACCTAAAAAGTCTACTAATTTGG +TTAAAAACAAATGTGTCAATTTCAACTTYAATGGTTTAAHAGGCACAGGTGTTCTTACTG +AGTCTAACAAAAAGTTTCTGCCTTTCCAACAATTTGGCAGAGACATTGMTGACAYTAYTG +WTGCTGTCCGTGATCCACAGACACTTGAGATTCTTGACATTACACCATGTTCTTTTGGTG +GTGTCAGTGTTATAACACCAGGAACAAATACTTCTAACCAGGTTGCTGTTCTTTATCAKG +GTGTTAACTGCACASAAGTCYCTGTTGCTATTCATGCAGATCAACTTACTCCTACTTGGC +GTGTTTATTCTACAGGTTCTAATGTTTTTCAAACACGTGCAGGCTGTTTAATAGGGGYTG +AAYATGTCAACARCTCATATGAGTGTGACATACCYRTTGGTGCAGGTATATGCGCTAGTT +ATCADACTCABAYTAAKTCTCVTCGKCGGGCACGTAGTGTAGYTAGTCAATCYATCATTG +CCTACACTATGTCACTTGGTGYAGAAAWTTYAGTTGYTTACTCTAATAACTCTATTGCCA +TACCYACAAATTTTACTATTAGTGTTACCACAGAAATTCTACCAGTGTCTATGACYAAGA +CATCRGTAGATTGTACAATGTACATTTGTGGTGATTCAAYTGAATGCAGCAATCTTTTGT +TGCAATATGGCAGTTTTTGTACACAATTAAAMCGTGCTTTAACTGGAATAGCTGTTGAAC +AAGACAAAAACACCCAAGAAGTTTTTGCACAAGTCAAACAAATTTACAAAAYACCACCAA +TTAAAKATTTTGGTGGTTTTAATTTTTCACAAATATTACCAGATCCATCAAAACCAAGCA +AGAGGTCATTTATTGAAGATCTACTTTTCAACAAAGTGACACTTGCAGATGCTGGCTTCA +TCAAACAATATGGTGAYTGCCTTGGTGATATTGCTGCTAGAGACCTCATTTGTGCACAAA +AGTTTARHGGYMTTAMTGTTTTGCCACCTTTGCTCACAGATGAAATGATTGCTCAATACA +CTTCTGCACTGTTAGCGGGTACAATCAYTTCTGGTTGGACCTTTGGTGCAGGTGCTGCAT +TACAAATACCATTTGCTATGCAAATGGCTTATAGGTTTAATGGTATTGGAGTTACACAGA +ATGTTCTCTATGAGAACCAAAAATTGATTGCCAACCAATTTAATAGTGCTATTGGCAAAR +TTCAAKAYTCACTTTCTTCCWCAKCAAGTGCACTTGGAAAACTTCAARATGTGRTCAACC +AWAATGCACAAGCTTTAAACACGCTTGTTAAACAACTTAGCTCCAAWTTTGGTGCAATTT +CAAGTGTTTTAAATGATATCYTTTCACGTCTTGACAAAGTTGAGGCTGAAGTGCAAATTG +ATAGGTTGATCACAGGCAGACTTCAAAGTTTGCAGACATATGTGACTCAACAATTAATTA +GAGCTGCAGAAATCAGAKCTTCTGCTAATCTTGCTGCTACTAAAATGTCAGAGTGTGTAC +TTGGACAATCAAAAAGAGTTGATTTTTGTGGAAAGGGCTATCATCTTATGTCCTTCCCTC +AGTCAGCACCTCATGGTGTAGTYTTCTTGCATGTGACTTATGTCCCTGCACAAGAAAAGA +ACTTCACAACTGCTCCTGCCATTTGTCATGATGGAAAAGCACACTTTCCTCGTGAAGGTG +TCTTTGTTTCAAATGGCACAYACTGGTTTKTAACACAAAGGAATTTTTATGAACCACAAA +TCATTACTAYASACAACACATTTGTKTCTGGTAACTGTGATGTTGTAATAGGAATTGTCA +ACAACACAGTTTATSATCCTTTGCAACCWGAATTAGAYTCRTTCAAGGAGGAGTTAKATA +AATATTTTAAGAATCATACATCAYYAGATGTTGATTTAGGTGACATCTCTGGCATTAATG +CTTCAGTTGTAAAYATTCAAAAAGAAATTGACCGCCTCAATGAGGTTGCCAAGAATTTAA +ATGAATCTCTCATCRATCTCCAAGAACTTGGAAAGTATGAGCAGTATATAAAATGGCCAT +GGTACATTTGGCTAGGTTTTATAGCTGGCTTGATTGCCATAGTAATGGTGACAATTATGC +TTTGCTGTATGACCAGTTGCTGTAGTTGTCTCAAGGNGCTGTTGTTCTTGTGGATYCTGC +TGCAAATTTGATGAAGACGACTCTGAGCYAKTGCTCAAAGGAGTCAAATTACATTACACA +TAAACGAACTTATGGATTTGTTTATGAGAATYTTYACAATTGGAACTGTAACTTTGAAGC +AAGKTGAAATCAAGGATGCTACTCCTTYAKATTTTGTTCGCGCTACTKCAACGATACCGA +YACAAGCCTCACTCCCTTTYGGATGGCTTATTGTTGKCGTTGCACTTCTTGYTGTTTTTC +AKAGCGCYTCYAAAATCATAACYCTCAAAAAGAGATGGCAACTAGCACTCTCYAAGGGTG +TTYACTTTGTTTGCAACTTGCTGTTGTTGTTTGTAACAGTTTACTCACACCTTTTGCTCR +TTGCTGCTGGCCTTGAAGNCCCCTTTTYTCTMTSTTTATGYTTTAGTCTACTTCTTGCAG +AGTATAAACTTTGTAAGAATAATAATGAGGCTTTGGCTTTGCTGGAAATGCCGTTCCAAA +AACCCATTAYTTTATGATGCCAACTATTTTCTTTGCTGGCATACTAATTGTTAYKACTAT +TGTATACCTTACAATAGTGTAACTTCTTCAATTGTYRTTACTTCAGGTGATGGCAYAACA +AGTCCTATTTCTGAACATGACTACCAGATTGGTGGTTATACTGAAAAATGGGAATCTGGA +GTAAAAGACTGTGTTKTATTACACAGTTAYTTCACTTCAGACTATTACCARCTGTACTCA +ACTCAATTGAGTACAGACAYTGGTGTTGAACATGTTAYCTTCTTCATCTACAATAAAATT +GTTGATSADYCTGAAGAACATGTCCAAATTCACACAATCGACGGTTCATCYGGAGTTGTT +AATCCAGTAATGGAACCAATTTATGATGAACCGACGACGACTACTAGCGTGCCTTTGTAA +GCACAAGCTGATGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAGAYAGGTRCGTTA +ATAGTTAATAGCGTACTTCTTTTTCTTGCTTTCGTGGTATTCTTGCTAGTTACACTAGCC +ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGRGTCTTGTA +AAACCTTYTTTTTACKTTTACTCTCKTKTTAAAAATCTGAATTCTTCTAGAGTTCCTGRT +CTTCTGGTCTAAACGAACTAAATANATATTWGTTTTTCTGTTTGGAACTTTAATTTTAGC +CATGGCARRTTCCAACGGTACTATTACCGTTGAAGAGCTTAAAAAGCTCCTTGAASAATG +GAACCTAGTAATAGGTTTCCTATTCCTTACATGGATTTGTCTTYTACAATTTGCCTATGC +CAACAGGAATAGGTTTTTGTATATAATTAAGTTAATTTTYCTCTGGCTGTTATGGCCAGT +AACTTTARCTTGTTTTGTGCTTGCTGCTGTTTACAGAATAAATTGGATCACCGGTGGAAT +TGCTAYCGCAATGGCTTGTCTTGTAGGCTTGATGTGGCTCAGCTACTTCATTGCTTCYTT +CAGACTGTTTGCGCGTACGCGTTCCATGTGGTCATTYAATCCAGAAACTAAYATTCTTCT +CAACGTGCCACTCCATGGCACTATTCTGACCAGACCGCTTCTAGAAAGTGAACTCGTAAT +CGGAGCTGTGATCCTTCRTGGACATCTTCGTATTGCTGGACACCATCTAGGACGCTGTGA +CATYAAGGACYTKCCTAAAGAAATCACTGTTGCTACRTCACGAACGCTTTCTTATTACAA +ATTGGGAGCTTCGCAGCGTGTAGCAGGTGACTCAGGTTTTGCTGCATACAGTCGCTACAG +GATTGGCAACTATAAATTAAACACAGACCATTCCAGTAGCAGTGACAATATTGCTTTGCT +TGTACAGTAAGTGACAACAGATGTTTCATCTCGTTGRCTTTCAGGTTACTATAGCAGAGA +TATTACTAATTATTATGMGGACTTTTAAAGTTTCCATTTGGAATCTTGATTACATCATAA +ACCTCATAATTAAAAATTTATCTAAGTCACTAACTGAGAATAAATATTCTCAATTAGAYG +AAGAGCAACYAATGGAGATTSWYTAARYGAAYATGAAAATTATTCTTTTCTTGGCACTGA +TAACACTCRYTACTTGYGAGCTTTATCACTACCAAGAGTGTGTTAGAGGTACAACAGTAC +TTTTAAAAGAACCTTGCTCYTCTGGMASATAYGAGGGCAATTCACCATTTYATCCTCTAG +CTGATAAYAAATTTGCACTGACTTKCTTTAGCASYYAATTTGCTTTTGCTTGTCCTGAYG +GCGTAAAACACGTCTATCAGTTACGTGMCAGATCAGYTTCACCTAAACTGTTCATCAGAC +AAGAGGAAGTTCAAGAACTTTACTCTCCAATTTTYCTTATTGTTGYGGCAATAGTGTTTA +TAACACTTTGCTTCACAYTYAAAAGMAAGAYAGAATGATTKAACTTTCATTAATTGACTT +CTATTTKTGCTTTTTAKCYTTTCTGYTATTCCTTGTTTTAATTATGCTTATTATCTTTTG +GTTCTCACTTGAACTGCAAGATCATAATKAAAYTTGYYACGCCTAAAYKAACATGAMATT +TCTTGTTTTCTTAKGAATCATCACAACTGTAGCTGCATTTYACYAAGAATGTAGTTTACA +GTCATGTACTYAACATCAACCATATGTAGTTGAYGACCCGTGTCCTATTCACTKCTATTC +TAAATGGTATATTAGAGTAGGAGYTAGAAAATCAGCACCTTTAATTGAATTGTGCKTGGA +TGAGKCTGGTTYTAAATCACCCATTCAGTACATCGATATCGGTAATTATACAGTTTCCTG +TTTACCTTYTAYAATTAATTGCCAGGAAYCTAAATTGGGTAGTCTTGTAGTGCGTTGTTC +GTTCTATGAAGACTTTTTAGAGTATCATGACGTTCGTGNNGTTTTANNTCTAAACGAACA +AACTNNAAATGTCTGATAATGGACCCCAAAAYCWGCGAAATGCACYYCGCATTACGTTTG +GTGGRCCCTCAKATTCAACTGGCAGTAACCAGAATKNNAKTGGGGCKCGATCAAAACAAC +GTCGRCCCCARGGTTTACCCAATAATACTGCGTCTTGGTTYACYGCTCTCACTCARCATG +GCAAGGAAGRYCTTAAATTCYCTCGAGGACAAGGCGTTCCAATTAACACCAATAGCAGYC +CAGATGACCAAATTGGCTACTACCGAAGAGCTACCAGAMGAATTCGTGGTGGTGAYGGTA +AAATGAAAGATCTYAGTCCAAGATGGTATTTYTACTACCTAGGAACTGGGCCAGAAGCTG +GACTTCCCTATGGTGCTAAYAAAGACGGCATCATATGGGTTGCAAYTGAKGGAGCCTTGA +AYACACCAAAAGATCACATTGGCACCCGYAATYCTGCTAACAATGCTGCAATCGTGCTAC +AACTTCCTCAAGGAACAAYATTGCCRAAAGGCTTCTACGCAGAAGGGAGCAGAGGCGGCA +GTCAAGCCTCTTCTCGTTCCTCATCACGTAGTCGCAAYAGTTCAAGAAATTCAACTCCAG +GCAGCAKTADRSGAAYTTCTCCTGCTAGAATGGCTGGCAATGGCKGTGATGCTKCTYTTG +CTTTGCTGCTGCTTGACAGATTGAACCAGCTTGAGAGCAAAATGTCTGGTAAAGGCCAAC +AACAACAAGGCCAAACTGTCACTAAGAAATCTGCTGCTGAGGCTTCTAAGAARCCTCGGC +AAAAACGTACTGCCACTAAAGCATAYAATGTAACACAAGCTTTYGGCAGACGTGGTCCAG +AACAAACCCAAGGAAATTTTGGGGACCAGGAACTAATCAGACAAGGAACTGATTACAAAM +AYTGGCCGCAAATTGCACAATTTGCCCCCAGCGCTTCAGCGTTCTTCGGAATGTCGCGCA +TTGGCATGGAAGTCACACCTTYKGGAACGTGGTTGACCTACACAGGTGCCATYAAATTGG +ATGACAAAGRTCCAAATTTYAAAGATCAAGTCATTTTGCTGAATAAGCATATTGACGCAT +ACAAAAYATTCCCACCAAYAGAGCCYAAAAAGGAYAAAAAGAAGAAGGCTKATSAAAYTC +AAGCCTTACCKCAGAGACAGAAGAAACAGCAAACTGTGACTCTTCTTCCTGCTGCAGATT +TGGATGATTTCTCCAAACAATTGCAACAATCCATGAGCMGTGCTGACTCAACYCARGCCT +AAACTCATGCAGACCACACAAGGCAGATGGGCTATATAAACGTTTTCGYTTTTCCGTTTA +CGATATATAGTCTACTCTTGTGYAGAATGAATTYTCGTAAYTACATAGCACAAGTAGATG +TAGTTAACTTTAATYTCACATAGCAATCTTTAATCAGTGTGTAACATTRGGGAGKACTTG +AAAGAGCCACCACATTTTCACCGAGKCCACKCGGAGTACKATCGAGTGTACAGTGAACAA +TGCTAGGGAGAGCTGCCTATATGGAAGAGCCCTAATGTGTAAAATTAATTTTAGTAGTGC +TATCCCCATGTGATTTTAATAGCTTCTTAGGAGAATGACAAAAAAAAAAAAAAAAAAAAA +AAAAAAAAAAA diff --git a/primerschemes/varvamp-sars-cov-2/700/v1.0.0/work/overview.png b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/work/overview.png new file mode 100644 index 0000000..8ee9d24 Binary files /dev/null and b/primerschemes/varvamp-sars-cov-2/700/v1.0.0/work/overview.png differ