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comparison test-data/test_02.genbank @ 4:e78e25d3b4bd draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/antismash commit f5f8e44e726c9f2cc57e0f0fe8182a73afa56669
author bgruening
date Tue, 31 May 2022 14:04:07 +0000
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3:5784e268efca 4:e78e25d3b4bd
1 LOCUS ARBH01000003 3500 bp DNA linear BCT 22-APR-2013
2 DEFINITION Amycolatopsis balhimycina FH 1894 strain DSM 44591
3 A3CEDRAFT_scaffold1.1_C3, whole genome shotgun sequence.
4 ACCESSION ARBH01000003
5 VERSION ARBH01000003.1
6 DBLINK BioProject: PRJNA165347
7 BioSample: SAMN02256403
8 KEYWORDS WGS; GSC:MIGS:2.1; IMPROVED_HIGH_QUALITY_DRAFT.
9 SOURCE Amycolatopsis balhimycina FH 1894
10 ORGANISM Amycolatopsis balhimycina FH 1894
11 Bacteria; Actinobacteria; Pseudonocardiales; Pseudonocardiaceae;
12 Amycolatopsis.
13 REFERENCE 1 (bases 1 to 3500)
14 AUTHORS Klenk,H.-P., Huntemann,M., Han,J., Chen,A., Kyrpides,N.,
15 Mavromatis,K., Markowitz,V., Palaniappan,K., Ivanova,N.,
16 Schaumberg,A., Pati,A., Liolios,K., Nordberg,H.P., Cantor,M.N.,
17 Hua,S.X. and Woyke,T.
18 TITLE Direct Submission
19 JOURNAL Submitted (16-APR-2013) DOE Joint Genome Institute, 2800 Mitchell
20 Drive, Walnut Creek, CA 94598-1698, USA
21 COMMENT ##MIGS-Data-START##
22 investigation_type :: bacteria_archaea
23 project_name :: Amycolatopsis balhimycina DSM 44591
24 collection_date :: Missing
25 lat_lon :: Missing
26 depth :: Missing
27 alt_elev :: Missing
28 country :: India
29 num_replicons :: Missing
30 ref_biomaterial :: DSM 44591
31 biotic_relationship :: Free living
32 rel_to_oxygen :: Aerobe
33 isol_growth_condt :: Missing
34 assembly :: Velvet v. 1.1.05; ALLPATHS v. r38445; Phrap v. 4.24
35 finishing_strategy :: Missing
36 environment :: Soil
37 trophic_level :: Missing
38 sequencing_meth :: WGS
39 GOLD Stamp ID :: Gi10728
40 Type Strain :: Yes
41 Funding Program :: DOE-CSP 2011
42 Isolation Site :: Soil
43 Cell Shape :: Filament-shaped
44 Motility :: Nonmotile
45 Sporulation :: Sporulating
46 Temperature Range :: Mesophile
47 Gram Staining :: Gram+
48 Diseases :: None
49 ##MIGS-Data-END##
50 ##Genome-Assembly-Data-START##
51 Finishing Goal :: Improved High-Quality Draft
52 Current Finishing Status :: Improved High-Quality Draft
53 Assembly Method :: Velvet v. 1.1.05; ALLPATHS v. r38445; Phrap v.
54 4.24
55 Genome Coverage :: Unknown
56 Sequencing Technology :: Illumina GAii
57 ##Genome-Assembly-Data-END##
58 URL -- http://www.jgi.doe.gov
59 JGI Project ID: 404843
60 Source DNA and Organism available from Hans-Peter Klenk
61 (hpk@dsmz.de)
62 Source DNA available from Hans-Peter Klenk (hpk@dsmz.de)
63 Organism available from Hans-Peter Klenk (hpk@dsmz.de)
64 Contacts: Hans-Peter Klenk (hpk@dsmz.de)
65 Tanja Woyke (microbe@cuba.jgi-psf.org)
66 Whole genome sequencing and draft assembly at JGI-PGF
67 Annotation by JGI-ORNL
68 The JGI and collaborators endorse the principles for the
69 distribution and use of large scale sequencing data adopted by the
70 larger genome sequencing community and urge users of this data to
71 follow them. It is our intention to publish the work of this
72 project in a timely fashion and we welcome collaborative
73 interaction on the project and analysis.
74 (http://www.genome.gov/page.cfm?pageID=10506376)
75 Full annotations are available from IMG.
76 ##antiSMASH-Data-START##
77 Version :: 6.1.1
78 Run date :: 2022-05-11 13:39:18
79 ##antiSMASH-Data-END##
80 FEATURES Location/Qualifiers
81 source 1..3500
82 /culture_collection="DSM:44591"
83 /db_xref="taxon:1089545"
84 /mol_type="genomic DNA"
85 /organism="Amycolatopsis balhimycina FH 1894"
86 /strain="DSM 44591"
87 CDS complement(170..3134)
88 /ID="input.cds1.1"
89 /Name="input.path1.gene1"
90 /Note="initial-exon"
91 /gene="input.path1.gene1"
92 /phase="0"
93 /source="GlimmerHMM"
94 /transl_table=1
95 /translation="MPGQVIRRHTPRLQQPEQRHLEGEQRRLGVPRLVEGRGIVVPHHV
96 PQRTGQVEVPQHRVQRVGEHRVALVQLAAHPGPLAALAGEQERRAAPRHGAPHHAAVRL
97 VAGQCGQAAPQFVVVLGQQHRTVFEGRPGGGQRVPEHGRRHAVVQGVQHGGGLSAQRCF
98 RPAGQRDRHQAGLRLGAGFGGRFRGLLEDGVHVRAAQPEGRDTGPARPAALRPRHAAGR
99 QLDRAGAPVDVRGGLVHVQRLGYQPVPQRLHHLDHAGHAGGHLGVADVGLHRAEQQRPF
100 PVLAVGGQQGLGLDRVAQRGAGAVALDHVHLGRREPRVGQRLPDHPLLGRAAGRGHAVG
101 RAVLVRGRTPDHRQDPVPVALRVGQLLQQHQADALAEGHAVGPVRVGLATAVRGQCALA
102 READERPRRRHHAHPAGQRQAALPRPQRLRGQVDGDQRRRAGGVQGDRRALQPEQVGEP
103 AGQDAAQRAGDHVAVGVVHRAGHGRGVVLVAGPDEGAGAAAPQRVRVDPGPLERLPRRL
104 QQQALLRIHGQCLPRRDAEEARVELGRLVQEAALHRIGLAAGVRVRVVERVGRPVAVGR
105 EAGDGVHAAHDQVPQPFRGVRATRVAAGHPDDGDGLAGVHAGHGRCLLDGTRAGDRGGQ
106 EPGQPPRRRVVEHHGGGQGQAGAGGDPVAQVDRGDRVEADVAEGAVLGQRVGRRVAQHG
107 RGLGPDQFQEQVGALGLGQRAQPGGELAAGAGGGRGGGGLGEPPHLRQLVEQQRRPDGG
108 VDRVVPLPVQIGHGQRGLVVVQGPAQTLQRQLRRHEHQAAAHDLLRVDPAEFAVVGPDA
109 PRQRGGPQPPGAPVGCQRVQVRVAGHVGGVRAGAPQAGGGGVQHERIELVGVEQLVQVA
110 RAHHLGVHGPGERGQVGLGQRVQLDHGGRVHHVPHGPALGPQPRQQGGQRRLVGDVAGH
111 RLDGLAQLRQQLPGLRGLGAGAAGQHDVLGALLGQPAGQVRGQGAGAAGDQRGAARGP"
112 CDS 3249..3404
113 /ID="input.cds2.1"
114 /Name="input.path1.gene2"
115 /Note="initial-exon"
116 /gene="input.path1.gene2"
117 /phase="0"
118 /source="GlimmerHMM"
119 /transl_table=1
120 /translation="MVSVRGSEADVAGHLGEDVAVAAVNGPESVVLAGTEDAVLQAAGR
121 LEAAGHK"
122 ORIGIN
123 1 ggggcggcgt gctcgccctg cccgccgagc tggaccgccg cggcggcgac cggctggcgg
124 61 ctgtgctgtc cggcgccacc ggcgaagacc agctggccat ccgcgccgcc ggcgtgttcg
125 121 gccgccgcgt ggtgcgggcc ccggccggcg accgcgcgcc ggcgcggacc tggaccccgc
126 181 gcggcaccac gctgatcacc ggcggcaccg gcaccctggc cccgcacctg gcccgctggc
127 241 tggccgagca gggcgccgag cacatcgtgc tgaccagccg caccggcgcc gaggccccga
128 301 aggcccggca gctgctggcg gagctgggcg agaccgtcga ggcggtggcc tgcgacgtca
129 361 ccgacaaggc ggcgctggcc gccctgctgg cgcggttgcg ggccgagggc cggaccgtgc
130 421 ggaacgtggt gcacacggcc gccgtgatcg agctgcacac gctggccgag accgacctgg
131 481 ccgcgttctc ccggaccgtg cacgccaagg tggtgggcgc gcgcaacctg gacgagctgc
132 541 tcgacaccga cgagctcgat gcgttcgtgc tgtactcctc caccgccggc ctgtggggca
133 601 ccggcgcgca cgccgcctac gtggccggca acgcgtactt gcacgcgctg gcagcccacc
134 661 ggcgcgcccg ggggctgcgg gccaccgcgc tgtcgtgggg catctgggcc gacgaccgcg
135 721 aactcggccg ggtcgacccg gagcagatcg tgcgcagcgg cctggtgttc atggcgccgg
136 781 agctggcgct ggagggtctg cgccgggccc tggacgacga cgagaccgcg ctggccgtgg
137 841 ccgatctgga ctgggagcgg tactacccgg tctacaccgc cgtccggccg acgctgctgt
138 901 tcgacgagct gccggaggtg cggcggctca ccgaggccgc cgccgccacg gccgccaccg
139 961 gcgccggcgg cgagttcgcc gcccggctgc gcacgctgcc cgaggccgag cgcgcccacc
140 1021 tgctcctgga actggtccgg gccgaggccg cggccgtgct gggccacgcg tcggccgacg
141 1081 cgctgcccga ggaccgcgcc ttccgcgacg tcggcttcga ctcggtcacc gcggtcgacc
142 1141 tgcgcaaccg gatctccgcc ggcaccggcc tgaccctgcc cgccaccatg gtgttcgacc
143 1201 acccgacgcc gaggcggctg gccgggttcc tggccgccac gatcaccggc tcgggtgccg
144 1261 tcgagcaggc accggccgtg gccggcgtgg acaccggcga gcccgtcgcc atcatcggga
145 1321 tggcctgccg ctacccgggt ggcgcgaaca ccccggaacg gttgtgggac ctggtcgtgg
146 1381 gcggcgtgga cgccatctcc ggcttcccgg ccgaccgcaa ctggccgacc gacgcgctct
147 1441 acgacccgga cccggacgcc ggcggcaaga cctattcggt gcagggcggc ttcctgcacg
148 1501 aggcggccga gttcgacccg ggcttcttcg gcatctcgcc gcgggaggca ctgtccatgg
149 1561 atccgcagca gcgcctgctg ctggagacgg cgtgggaggc gttcgagcgg gccgggatcg
150 1621 acccgcacac gctgcggggc agcggcaccg gcaccttcat cggggccagc taccaggact
151 1681 acaccgcggc cgtgtccggc gcggtggaca acgccgacgg ccacatgatc accggctcgc
152 1741 tgggcagcat cctgtccggc cggctctcct acctgttcgg gctggagggc ccggcggtca
153 1801 ccctggacac cgcctgctcg tcgtcgctgg tcgccatcca cctggccgcg cagtcgctgc
154 1861 ggtcggggga gagcagcctg gcgctggccg gcggggtgag cgtgatggcg acgccggggg
155 1921 cgttcgtcgg cttctcgcgc cagcgcgcac tggccacgga cggccgttgc aaggcctact
156 1981 cggaccgggc cgacggcatg accctcggcg agggcgtcgg cctggtgctg ctggagaagc
157 2041 tgtccgacgc gcagcgcaac gggcaccgga tcctggcggt ggtccggggt tcggccacga
158 2101 accaggacgg cgcgtccaac ggcatgaccg cgcccagcgg cccgtcccag cagcgggtga
159 2161 tccggcaggc gctggccaac gcgcggctct cggcgtccga ggtggacgtg atcgagggcc
160 2221 acggcaccgg caccgcgctg ggcgacccga tcgaggccca ggccctgctg gccacctacg
161 2281 gccaggaccg ggaacggccg ctgctgctcg gctcggtgaa gtccaacatc ggccacaccc
162 2341 agatggcctc cggcgtggcc ggcgtgatca aggtggtgca ggcgctgcgg cacgggctgg
163 2401 tacccaagac gctgcacgtg gacgagccct ccacgcacgt cgactggagc accggctcga
164 2461 tcgagctgcc gtccggcagc gtgccgtggc cggagagcgg ccggccgcgc cgggccggta
165 2521 tctcgtcctt cgggctgagc ggcacgaacg tgcacaccat cctcgagcag gccccggaac
166 2581 cggccgccga agccggcccc gagccggagc ccggcctggt gccggtcccg ctgtccggcc
167 2641 ggacggaagc agcgctgcgc gctcaggccg ccaccgtgct ggacaccctg gacgacggcg
168 2701 tgtcgccggc cgtgctcggg tactcgctgg cctccacccg gtcggccttc gaacaccgtg
169 2761 cggtgctgct ggccgaggac cacgacgaac tgcggcgcgg cctggccgca ctggccggcg
170 2821 accagccgga cggcggcgtg gtgcggggca ccgtgacgcg gggccgcacg gcgttcctgt
171 2881 tcgccggcca gggcagccag cgggccggga tgggccgcga gctgtacgag cgccacccgg
172 2941 tgttcgccga cgcgctggac gcggtgctgg ggcacttcga cctgccccgt gcgctgcggg
173 3001 acgtgatgtg ggacgacgat tccacggccc tcgacgagac ggggtacacc cagccggcgt
174 3061 tgttcgcctt cgaggtggcg ttgttccggt tgctggagtc gtggggtgtg acgccggatt
175 3121 acctggccgg gcattcgatc ggtgagatcg ccgcggcgca cgtggccgga gtgttgtcgc
176 3181 tggccgatgc ctgtgcgttg gtcgctgcgc ggggtgcgct gatgcaggcg ctgccgtccg
177 3241 gcggggccat ggtttcggtg cgcggctccg aggccgacgt cgccgggcac ctcggcgagg
178 3301 acgtcgccgt cgcggcggtc aacgggcccg agtcggtggt gctggccggg accgaggacg
179 3361 cggtgctcca ggcggccggc cgcctggagg ccgccggcca caaggtccgc cgcctgcggg
180 3421 tcagccacgc cttccactcg cccttgatgg atcccgtgct ggccgagttc gcgacggtgg
181 3481 ctcagggcct gacctaccac
182 //