annotate test-data/test_02.genbank @ 5:bc88856eddab draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/antismash commit dc45770442ff516d6f3733e4bdb284be3163de67

LOCUS       ARBH01000003            3500 bp    DNA     linear   BCT 22-APR-2013
DEFINITION  Amycolatopsis balhimycina FH 1894 strain DSM 44591
            A3CEDRAFT_scaffold1.1_C3, whole genome shotgun sequence.
ACCESSION   ARBH01000003
VERSION     ARBH01000003.1
DBLINK      BioProject: PRJNA165347
            BioSample: SAMN02256403
KEYWORDS    WGS; GSC:MIGS:2.1; IMPROVED_HIGH_QUALITY_DRAFT.
SOURCE      Amycolatopsis balhimycina FH 1894
  ORGANISM  Amycolatopsis balhimycina FH 1894
            Bacteria; Actinobacteria; Pseudonocardiales; Pseudonocardiaceae;
            Amycolatopsis.
REFERENCE   1  (bases 1 to 3500)
  AUTHORS   Klenk,H.-P., Huntemann,M., Han,J., Chen,A., Kyrpides,N.,
            Mavromatis,K., Markowitz,V., Palaniappan,K., Ivanova,N.,
            Schaumberg,A., Pati,A., Liolios,K., Nordberg,H.P., Cantor,M.N.,
            Hua,S.X. and Woyke,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-APR-2013) DOE Joint Genome Institute, 2800 Mitchell
            Drive, Walnut Creek, CA 94598-1698, USA
COMMENT     ##MIGS-Data-START##
            investigation_type       :: bacteria_archaea
            project_name             :: Amycolatopsis balhimycina DSM 44591
            collection_date          :: Missing
            lat_lon                  :: Missing
            depth                    :: Missing
            alt_elev                 :: Missing
            country                  :: India
            num_replicons            :: Missing
            ref_biomaterial          :: DSM 44591
            biotic_relationship      :: Free living
            rel_to_oxygen            :: Aerobe
            isol_growth_condt        :: Missing
            assembly :: Velvet v. 1.1.05; ALLPATHS v. r38445; Phrap v. 4.24
            finishing_strategy       :: Missing
            environment              :: Soil
            trophic_level            :: Missing
            sequencing_meth          :: WGS
            GOLD Stamp ID            :: Gi10728
            Type Strain              :: Yes
            Funding Program          :: DOE-CSP 2011
            Isolation Site           :: Soil
            Cell Shape               :: Filament-shaped
            Motility                 :: Nonmotile
            Sporulation              :: Sporulating
            Temperature Range        :: Mesophile
            Gram Staining            :: Gram+
            Diseases                 :: None
            ##MIGS-Data-END##
            ##Genome-Assembly-Data-START##
            Finishing Goal           :: Improved High-Quality Draft
            Current Finishing Status :: Improved High-Quality Draft
            Assembly Method :: Velvet v. 1.1.05; ALLPATHS v. r38445; Phrap v.
            4.24
            Genome Coverage          :: Unknown
            Sequencing Technology    :: Illumina GAii
            ##Genome-Assembly-Data-END##
            URL -- http://www.jgi.doe.gov
            JGI Project ID: 404843
            Source DNA and Organism available from Hans-Peter  Klenk
            ([e-mail])
            Source DNA available from Hans-Peter  Klenk ([e-mail])
            Organism available from Hans-Peter  Klenk ([e-mail])
            Contacts: Hans-Peter  Klenk ([e-mail])
            Tanja Woyke ([e-mail])
            Whole genome sequencing and draft assembly at JGI-PGF
            Annotation by JGI-ORNL
            The JGI and collaborators endorse the principles for the
            distribution and use of large scale sequencing data adopted by the
            larger genome sequencing community and urge users of this data to
            follow them. It is our intention to publish the work of this
            project in a timely fashion and we welcome collaborative
            interaction on the project and analysis.
            (http://www.genome.gov/page.cfm?pageID=10506376)
            Full annotations are available from IMG.
            ##antiSMASH-Data-START##
            Version      :: 6.1.1
            Run date     :: 2022-05-11 13:39:18
            ##antiSMASH-Data-END##
FEATURES             Location/Qualifiers
     source          1..3500
                     /culture_collection="DSM:44591"
                     /db_xref="taxon:1089545"
                     /mol_type="genomic DNA"
                     /organism="Amycolatopsis balhimycina FH 1894"
                     /strain="DSM 44591"
     CDS             complement(170..3134)
                     /ID="input.cds1.1"
                     /Name="input.path1.gene1"
                     /Note="initial-exon"
                     /gene="input.path1.gene1"
                     /phase="0"
                     /source="GlimmerHMM"
                     /transl_table=1
                     /translation="MPGQVIRRHTPRLQQPEQRHLEGEQRRLGVPRLVEGRGIVVPHHV
                     PQRTGQVEVPQHRVQRVGEHRVALVQLAAHPGPLAALAGEQERRAAPRHGAPHHAAVRL
                     VAGQCGQAAPQFVVVLGQQHRTVFEGRPGGGQRVPEHGRRHAVVQGVQHGGGLSAQRCF
                     RPAGQRDRHQAGLRLGAGFGGRFRGLLEDGVHVRAAQPEGRDTGPARPAALRPRHAAGR
                     QLDRAGAPVDVRGGLVHVQRLGYQPVPQRLHHLDHAGHAGGHLGVADVGLHRAEQQRPF
                     PVLAVGGQQGLGLDRVAQRGAGAVALDHVHLGRREPRVGQRLPDHPLLGRAAGRGHAVG
                     RAVLVRGRTPDHRQDPVPVALRVGQLLQQHQADALAEGHAVGPVRVGLATAVRGQCALA
                     READERPRRRHHAHPAGQRQAALPRPQRLRGQVDGDQRRRAGGVQGDRRALQPEQVGEP
                     AGQDAAQRAGDHVAVGVVHRAGHGRGVVLVAGPDEGAGAAAPQRVRVDPGPLERLPRRL
                     QQQALLRIHGQCLPRRDAEEARVELGRLVQEAALHRIGLAAGVRVRVVERVGRPVAVGR
                     EAGDGVHAAHDQVPQPFRGVRATRVAAGHPDDGDGLAGVHAGHGRCLLDGTRAGDRGGQ
                     EPGQPPRRRVVEHHGGGQGQAGAGGDPVAQVDRGDRVEADVAEGAVLGQRVGRRVAQHG
                     RGLGPDQFQEQVGALGLGQRAQPGGELAAGAGGGRGGGGLGEPPHLRQLVEQQRRPDGG
                     VDRVVPLPVQIGHGQRGLVVVQGPAQTLQRQLRRHEHQAAAHDLLRVDPAEFAVVGPDA
                     PRQRGGPQPPGAPVGCQRVQVRVAGHVGGVRAGAPQAGGGGVQHERIELVGVEQLVQVA
                     RAHHLGVHGPGERGQVGLGQRVQLDHGGRVHHVPHGPALGPQPRQQGGQRRLVGDVAGH
                     RLDGLAQLRQQLPGLRGLGAGAAGQHDVLGALLGQPAGQVRGQGAGAAGDQRGAARGP"
     CDS             3249..3404
                     /ID="input.cds2.1"
                     /Name="input.path1.gene2"
                     /Note="initial-exon"
                     /gene="input.path1.gene2"
                     /phase="0"
                     /source="GlimmerHMM"
                     /transl_table=1
                     /translation="MVSVRGSEADVAGHLGEDVAVAAVNGPESVVLAGTEDAVLQAAGR
                     LEAAGHK"
ORIGIN
        1 ggggcggcgt gctcgccctg cccgccgagc tggaccgccg cggcggcgac cggctggcgg
       61 ctgtgctgtc cggcgccacc ggcgaagacc agctggccat ccgcgccgcc ggcgtgttcg
      121 gccgccgcgt ggtgcgggcc ccggccggcg accgcgcgcc ggcgcggacc tggaccccgc
      181 gcggcaccac gctgatcacc ggcggcaccg gcaccctggc cccgcacctg gcccgctggc
      241 tggccgagca gggcgccgag cacatcgtgc tgaccagccg caccggcgcc gaggccccga
      301 aggcccggca gctgctggcg gagctgggcg agaccgtcga ggcggtggcc tgcgacgtca
      361 ccgacaaggc ggcgctggcc gccctgctgg cgcggttgcg ggccgagggc cggaccgtgc
      421 ggaacgtggt gcacacggcc gccgtgatcg agctgcacac gctggccgag accgacctgg
      481 ccgcgttctc ccggaccgtg cacgccaagg tggtgggcgc gcgcaacctg gacgagctgc
      541 tcgacaccga cgagctcgat gcgttcgtgc tgtactcctc caccgccggc ctgtggggca
      601 ccggcgcgca cgccgcctac gtggccggca acgcgtactt gcacgcgctg gcagcccacc
      661 ggcgcgcccg ggggctgcgg gccaccgcgc tgtcgtgggg catctgggcc gacgaccgcg
      721 aactcggccg ggtcgacccg gagcagatcg tgcgcagcgg cctggtgttc atggcgccgg
      781 agctggcgct ggagggtctg cgccgggccc tggacgacga cgagaccgcg ctggccgtgg
      841 ccgatctgga ctgggagcgg tactacccgg tctacaccgc cgtccggccg acgctgctgt
      901 tcgacgagct gccggaggtg cggcggctca ccgaggccgc cgccgccacg gccgccaccg
      961 gcgccggcgg cgagttcgcc gcccggctgc gcacgctgcc cgaggccgag cgcgcccacc
     1021 tgctcctgga actggtccgg gccgaggccg cggccgtgct gggccacgcg tcggccgacg
     1081 cgctgcccga ggaccgcgcc ttccgcgacg tcggcttcga ctcggtcacc gcggtcgacc
     1141 tgcgcaaccg gatctccgcc ggcaccggcc tgaccctgcc cgccaccatg gtgttcgacc
     1201 acccgacgcc gaggcggctg gccgggttcc tggccgccac gatcaccggc tcgggtgccg
     1261 tcgagcaggc accggccgtg gccggcgtgg acaccggcga gcccgtcgcc atcatcggga
     1321 tggcctgccg ctacccgggt ggcgcgaaca ccccggaacg gttgtgggac ctggtcgtgg
     1381 gcggcgtgga cgccatctcc ggcttcccgg ccgaccgcaa ctggccgacc gacgcgctct
     1441 acgacccgga cccggacgcc ggcggcaaga cctattcggt gcagggcggc ttcctgcacg
     1501 aggcggccga gttcgacccg ggcttcttcg gcatctcgcc gcgggaggca ctgtccatgg
     1561 atccgcagca gcgcctgctg ctggagacgg cgtgggaggc gttcgagcgg gccgggatcg
     1621 acccgcacac gctgcggggc agcggcaccg gcaccttcat cggggccagc taccaggact
     1681 acaccgcggc cgtgtccggc gcggtggaca acgccgacgg ccacatgatc accggctcgc
     1741 tgggcagcat cctgtccggc cggctctcct acctgttcgg gctggagggc ccggcggtca
     1801 ccctggacac cgcctgctcg tcgtcgctgg tcgccatcca cctggccgcg cagtcgctgc
     1861 ggtcggggga gagcagcctg gcgctggccg gcggggtgag cgtgatggcg acgccggggg
     1921 cgttcgtcgg cttctcgcgc cagcgcgcac tggccacgga cggccgttgc aaggcctact
     1981 cggaccgggc cgacggcatg accctcggcg agggcgtcgg cctggtgctg ctggagaagc
     2041 tgtccgacgc gcagcgcaac gggcaccgga tcctggcggt ggtccggggt tcggccacga
     2101 accaggacgg cgcgtccaac ggcatgaccg cgcccagcgg cccgtcccag cagcgggtga
     2161 tccggcaggc gctggccaac gcgcggctct cggcgtccga ggtggacgtg atcgagggcc
     2221 acggcaccgg caccgcgctg ggcgacccga tcgaggccca ggccctgctg gccacctacg
     2281 gccaggaccg ggaacggccg ctgctgctcg gctcggtgaa gtccaacatc ggccacaccc
     2341 agatggcctc cggcgtggcc ggcgtgatca aggtggtgca ggcgctgcgg cacgggctgg
     2401 tacccaagac gctgcacgtg gacgagccct ccacgcacgt cgactggagc accggctcga
     2461 tcgagctgcc gtccggcagc gtgccgtggc cggagagcgg ccggccgcgc cgggccggta
     2521 tctcgtcctt cgggctgagc ggcacgaacg tgcacaccat cctcgagcag gccccggaac
     2581 cggccgccga agccggcccc gagccggagc ccggcctggt gccggtcccg ctgtccggcc
     2641 ggacggaagc agcgctgcgc gctcaggccg ccaccgtgct ggacaccctg gacgacggcg
     2701 tgtcgccggc cgtgctcggg tactcgctgg cctccacccg gtcggccttc gaacaccgtg
     2761 cggtgctgct ggccgaggac cacgacgaac tgcggcgcgg cctggccgca ctggccggcg
     2821 accagccgga cggcggcgtg gtgcggggca ccgtgacgcg gggccgcacg gcgttcctgt
     2881 tcgccggcca gggcagccag cgggccggga tgggccgcga gctgtacgag cgccacccgg
     2941 tgttcgccga cgcgctggac gcggtgctgg ggcacttcga cctgccccgt gcgctgcggg
     3001 acgtgatgtg ggacgacgat tccacggccc tcgacgagac ggggtacacc cagccggcgt
     3061 tgttcgcctt cgaggtggcg ttgttccggt tgctggagtc gtggggtgtg acgccggatt
     3121 acctggccgg gcattcgatc ggtgagatcg ccgcggcgca cgtggccgga gtgttgtcgc
     3181 tggccgatgc ctgtgcgttg gtcgctgcgc ggggtgcgct gatgcaggcg ctgccgtccg
     3241 gcggggccat ggtttcggtg cgcggctccg aggccgacgt cgccgggcac ctcggcgagg
     3301 acgtcgccgt cgcggcggtc aacgggcccg agtcggtggt gctggccggg accgaggacg
     3361 cggtgctcca ggcggccggc cgcctggagg ccgccggcca caaggtccgc cgcctgcggg
     3421 tcagccacgc cttccactcg cccttgatgg atcccgtgct ggccgagttc gcgacggtgg
     3481 ctcagggcct gacctaccac
//