Mercurial > repos > crs4 > prokka
view test-data/out.sqn @ 14:eaee459f3d69 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prokka/ commit 9019ffd38b2b6692fc24c9b41ab2c2539050b01f
author | iuc |
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date | Wed, 28 Mar 2018 12:38:42 -0400 |
parents | a17498c603ec |
children |
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Seq-entry ::= set { class genbank , seq-set { seq { id { local str "contig1" } , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , molinfo { biomol genomic } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , inst { repr raw , mol dna , length 350 , seq-data iupacna "GAGTTTTATCGCTTCCATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGA AAAATTATCTTGATAAAGCAGGAATTACTACTGCTTGTTTACGAATTAAATCGAAGTGGACTGCTGGCGGAAAATGAG AAAATTCGACCTATCCTTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATCAACTAACGATTCTGTCAAA AACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTAGATATGAGTCACA TTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTGGATTACTATC" } } , set { class nuc-prot , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , seq-set { seq { id { local str "contig2" } , descr { molinfo { biomol genomic } } , inst { repr raw , mol dna , length 840 , seq-data iupacna "TGAGTCCGATGCTGTTCAACCACTAATAGGTAAGAAATCATGAGTCAAGTTACTG AACAATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTAACCGAAG ATGATTTCGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCTT GCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTTTATTGCTGCCGTCATTGCTT ATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTACGGAAAACATTATTAATG GCGTCGAGCGTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCTTGCGTGTACGCGCAGGAAACACTGACGTTCTTA CTGACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCGGAAGGAGTGATGTAATGTCTAAAGGTAAAAAACGTTCTGG CGCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACTAAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGTAGGTGG TCAACAATTTTAATTGCAGGGGCTTCGGCCCCTTACTTGAGGATAAATTATGTCTAATATTCAAACTGGCGCCGAGCG TATGCCGCATGACCTTTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCCGGT TATCGCTGGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGA CTCTA" } } , seq { id { local str "contig2_1" } , descr { title "hypothetical protein HMJLFLJH_00001 [Genus species]" , molinfo { biomol peptide , tech concept-trans } } , inst { repr raw , mol aa , length 152 , seq-data ncbieaa "MSQVTEQSVRFQTALASIKLIQASAVLDLTEDDFDFLTSNKVWIATDRSRARRCV EACVYGTLDFVGYPRFPAPVEFIAAVIAYYVHPVNIQTACLIMEGAEFTENIINGVERPVKAAELFAFTLRVRAGNTD VLTDAEENVRQKLRAEGVM" } , annot { { data ftable { { id local id 3 , data prot { name { "hypothetical protein" } } , location int { from 0 , to 151 , id local str "contig2_1" } } } } } } , seq { id { local str "contig2_2" } , descr { title "hypothetical protein HMJLFLJH_00002 [Genus species]" , molinfo { biomol peptide , tech concept-trans } } , inst { repr raw , mol aa , length 38 , seq-data ncbieaa "MSKGKKRSGARPGRPQPLRGTKGKRKGARLWYVGGQQF" } , annot { { data ftable { { id local id 4 , data prot { name { "hypothetical protein" } } , location int { from 0 , to 37 , id local str "contig2_2" } } } } } } } , annot { { data ftable { { id local id 1 , data cdregion { frame one , code { id 11 } } , product whole local str "contig2_1" , location int { from 39 , to 497 , strand plus , id local str "contig2" } , qual { { qual "inference" , val "ab initio prediction:Prodigal:2.6" } } , xref { { data gene { locus-tag "HMJLFLJH_00001" } } } } , { id local id 2 , data cdregion { frame one , code { id 11 } } , product whole local str "contig2_2" , location int { from 497 , to 613 , strand plus , id local str "contig2" } , qual { { qual "inference" , val "ab initio prediction:Prodigal:2.6" } } , xref { { data gene { locus-tag "HMJLFLJH_00002" } } } } } } } } , seq { id { local str "contig3" } , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , molinfo { biomol genomic } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , inst { repr raw , mol dna , length 210 , seq-data iupacna "CTGTAGACATTTTTACTTTTTATGTCCCTCATCGTCACGTTTATGGTGAACAGTGGATT AAGTTCATGAAGGATGGTGTTAATGCCACTCCTCTCCCGACTGTTAACACTACTGGTTATATTGACCATGCCGCTTTT CTTGGCACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACA" } } , set { class nuc-prot , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , seq-set { seq { id { local str "contig4" } , descr { molinfo { biomol genomic } } , inst { repr raw , mol dna , length 1260 , seq-data iupacna "ACTATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAGGCTAACCCTAATGAGCT TAATCAAGATGATGCTCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATTTGGACTGCTCCGCTTCCTCCTGAGAC TGAGCTTTCTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGCA TACTGACCAAGAACGTGATTACTTCATGCAGCGTTACCATGATGTTATTTCTTCATTTGGAGGTAAAACCTCTTATGA CGCTGACAACCGTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTTGATGGAACTGACCAAAC GTCGTTAGGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAACATTCTGTGCCGCGTTTCTTTGTTCCTGAGCATGG CACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGTACCTTAACGCTAAAGGTGC TTTGACTTATACCGATATTGCTGGCGACCCTGTTTTGTATGGCAACTTGCCGCCGCGTGAAATTTCTATGAAGGATGT TTTCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTATGTTTC TCCTGCTTATCACCTTCTTGAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACTTAT TCGCCACCATGATTATGACCAGTGTTTCCAGTCCGTTCAGTTGTTGCAGTGGAATAGTCAGGTTAAATTTAATGTGAC CGTTTATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAACGCC GAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGAGTTTA ATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGATAAGCTGGTTCTCACTTCTGTTACTCCA GCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTATATTTTGATAGTTTGACGGTTAATGCT GGTAATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTGTCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCT GATATTGCTTTTGATGCCGACCCTAAATTTTTTGC" } } , seq { id { local str "contig4_1" } , descr { title "hypothetical protein HMJLFLJH_00003 [Genus species]" , molinfo { biomol peptide , tech concept-trans } } , inst { repr raw , mol aa , length 287 , seq-data ncbieaa "MPDRTEANPNELNQDDARYGFRCCHLKNIWTAPLPPETELSRQMTTSTTSIDIMG LQAAYANLHTDQERDYFMQRYHDVISSFGGKTSYDADNRPLLVMRSNLWASGYDVDGTDQTSLGQFSGRVQQTYKHSV PRFFVPEHGTMFTLALVRFPPTATKEIQYLNAKGALTYTDIAGDPVLYGNLPPREISMKDVFRSGDSSKKFKIAEGQW YRYAPSYVSPAYHLLEGFPFIQEPPSGDLQERVLIRHHDYDQCFQSVQLLQWNSQVKFNVTVYRNLPTTRDSIMTS" } , annot { { data ftable { { id local id 6 , data prot { name { "hypothetical protein" } } , location int { from 0 , to 286 , id local str "contig4_1" } } } } } } } , annot { { data ftable { { id local id 5 , data cdregion { frame one , code { id 11 } } , product whole local str "contig4_1" , location int { from 20 , to 883 , strand plus , id local str "contig4" } , qual { { qual "inference" , val "ab initio prediction:Prodigal:2.6" } } , xref { { data gene { locus-tag "HMJLFLJH_00003" } } } } } } } } , set { class nuc-prot , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , seq-set { seq { id { local str "contig5" } , descr { molinfo { biomol genomic } } , inst { repr raw , mol dna , length 490 , seq-data iupacna "CTGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGACTGCCTAT GATGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCC CGTACGCCGGGCAATAACGTTTATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCTACTAAATGCCGCGGATTGGTT TCGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTGGTGCTATTGCTG GCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAAAGCCGCCTCCGGTGGCA TTCAAGGTGATGTGCTTGCTACCGATAACAATACTGTAGGCATGGGTGATGCTGGTATTAAATCTGCCATTCAAGGCT CTAATGTTCCTAACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTG" } } , seq { id { local str "contig5_1" } , descr { title "hypothetical protein HMJLFLJH_00004 [Genus species]" , molinfo { biomol peptide , tech concept-trans } } , inst { repr raw , mol aa , length 43 , seq-data ncbieaa "MVLLLAVLLLLLLVAPCLNCLEAVKKPPPVAFKVMCLLPITIL" } , annot { { data ftable { { id local id 8 , data prot { name { "hypothetical protein" } } , location int { from 0 , to 42 , id local str "contig5_1" } } } } } } } , annot { { data ftable { { id local id 7 , data cdregion { frame one , code { id 11 } } , product whole local str "contig5_1" , location int { from 274 , to 405 , strand plus , id local str "contig5" } , qual { { qual "inference" , val "ab initio prediction:Prodigal:2.6" } } , xref { { data gene { locus-tag "HMJLFLJH_00004" } } } } } } } } , set { class nuc-prot , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , seq-set { seq { id { local str "contig6" } , descr { molinfo { biomol genomic } } , inst { repr raw , mol dna , length 1960 , seq-data iupacna "GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCAC TTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAAAGGAAAGGATACTCG TGATTATCTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGT TGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCAACTGGACAATCAGAAAGAGATTGCCGAGATGCAAAA TGAGACTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGACCAGGTATATGCACAAAA TGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCGTCTATTATGGAAAACACCAATCTTTCCAAGCA ACAGCAGGTTTCCGAGATTATGCGCCAAATGCTTACTCAAGCTCAAACGGCTGGTCAGTATTTTACCAATGACCAAAT CAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGACTTAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCTCTTC TCATATTGGCGCTACTGCAAAGGATATTTCTAATGTCGTCACTGATGCTGCTTCTGGTGTGGTTGATATTTTTCATGG TATTGATAAAGCTGTTGCCGATACTTGGAACAATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTAATTTGTC TAGGAAATAACCGTCAGGATTGACACCCTCCCAATTGTATGTTTTCATGCCTCCAAATCTTGGAGGCTTTTTTATGGT TCGTTCTTATTACCCTTCTGAATGTCACGCTGATTATTTTGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTATTGA GGCTTGTGGCATTTCTACTCTTTCTCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGCATCAAGCTCTT GGAAGAGATTCTGTCTTTTCGTATGCAGGGCGTTGAGTTCGATAATGGTGATATGTATGTTGACGGCCATAAGGCTGC TTCTGACGTTCGTGATGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGAATTGGCACAATGCTACAATGTGCTCCC CCAACTTGATATTAATAACACTATAGACCACCGCCCCGAAGGGGACGAAAAATGGTTTTTAGAGAACGAGAAGACGGT TACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCCCTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAA AGGTATTAAGGATGAGTGTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTGCTATTCAGCGTTT GATGAATGCAATGCGACAGGCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATT AGAGGCGTTTTATGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGG TCGCAAGGCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTATGGTACAGCTAATGGCCGTCT TCATTTCCATGCGGTGCACTTTATGCGGACACTTCCTACAGGTAGCGTTGACCCTAATTTTGGTCGTCGGGTACGCAA TCGCCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCATCGCAGTTCGCTACACGCAGGA CGCTTTTTCACGTTCTGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAGCCGCTTAAAGCTACCAGTTATATGGCTGT TGGTTTCTATGTGGCTAAATACGTTAACAAAAAGTCAGATATGGACCTTGCTGCTAAAGGTCTAGGAGCTAAAGAATG GAACAACTCACTAAAAACCAAGCTGTCGCTACT" } } , seq { id { local str "contig6_1" } , descr { title "hypothetical protein HMJLFLJH_00005 [Genus species]" , molinfo { biomol peptide , tech concept-trans } } , inst { repr raw , mol aa , length 253 , seq-data ncbieaa "MAKAGKGLLEGTLQAGTSAVSDKLLDLVGLGGKSAADKGKDTRDYLAAAFPELNA WERAGADASSAGMVDAGFENQKELTKMQLDNQKEIAEMQNETQKEIAGIQSATSRQNTKDQVYAQNEMLAYQQKESTA RVASIMENTNLSKQQQVSEIMRQMLTQAQTAGQYFTNDQIKEMTRKVSAEVDLVHQQTQNQRYGSSHIGATAKDISNV VTDAASGVVDIFHGIDKAVADTWNNFWKDGKADGIGSNLSRK" } , annot { { data ftable { { id local id 10 , data prot { name { "hypothetical protein" } } , location int { from 0 , to 252 , id local str "contig6_1" } } } } } } } , annot { { data ftable { { id local id 9 , data cdregion { frame one , code { id 11 } } , product whole local str "contig6_1" , location int { from 5 , to 766 , strand plus , id local str "contig6" } , qual { { qual "inference" , val "ab initio prediction:Prodigal:2.6" } } , xref { { data gene { locus-tag "HMJLFLJH_00005" } } } } } } } } , seq { id { local str "contig7" } , descr { source { org { taxname "Genus species" , orgname { mod { { subtype strain , subname "strain" } } , gcode 11 } } } , molinfo { biomol genomic } , comment "Annotated using prokka 1.13 from https://github.com/tseemann/prokka" , user { type str "NcbiCleanup" , data { { label str "method" , data str "SeriousSeqEntryCleanup" } , { label str "version" , data int 8 } , { label str "month" , data int 3 } , { label str "day" , data int 27 } , { label str "year" , data int 2018 } } } , create-date std { year 2018 , month 3 , day 27 } } , inst { repr raw , mol dna , length 276 , seq-data iupacna "TCCCAAGAAGCTGTTCAGAATCAGAATGAGCCGCAACTTCGGGATGAAAATGCTCACAA TGACAAATCTGTCCACGGAGTGCTTAATCCAACTTACCAAGCTGGGTTACGACGCGACGCCGTTCAACCAGATATTGA AGCAGAACGCAAAAAGAGAGATGAGATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTTTGGCGGCGCAACCTGTGA CGACAAATCTGCTCAAATTTATGCGCGCTTCGATAAAAATGATTGGCGTATCCAACCTGCA" } } } }