Mercurial > repos > pimarin > bakta

comparison test-data/tmp/TEST_1.json @ 3:eea334d9988b draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/bakta commit 73af464cc860250c3fa3dd433602283ab5a44f53-dirty
author pimarin
date Thu, 22 Dec 2022 15:01:43 +0000
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2:ca9e2125c5de 3:eea334d9988b
1 {
2 "genome": {
3 "genus": null,
4 "species": null,
5 "strain": null,
6 "complete": true,
7 "gram": "?",
8 "translation_table": 11
9 },
10 "stats": {
11 "no_sequences": 1,
12 "size": 1330,
13 "gc": 0.4518796992481203,
14 "n_ratio": 0.0,
15 "n50": 1330,
16 "coding_ratio": 0.6203007518796992
17 },
18 "features": [
19 {
20 "type": "cds",
21 "contig": "contig_1",
22 "start": 413,
23 "stop": 736,
24 "strand": "+",
25 "gene": null,
26 "product": "hypothetical protein",
27 "start_type": "ATG",
28 "rbs_motif": "GGAG/GAGG",
29 "db_xrefs": [],
30 "frame": 2,
31 "aa": "MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRAAALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRLMAD",
32 "aa_hexdigest": "d9bdebc84195542e775c3d22458b507e",
33 "nt": "ATGACAAAACGAAGTGGAAGTAATACGCGCAGGCGGGCTATCAGTCGCCCTGTTCGTCTGACGGCAGAAGAAGACCAGGAAATCAGAAAAAGGGCTGCTGAATGCGGCAAGACCGTTTCTGGTTTTTTACGGGCGGCAGCTCTCGGTAAGAAAGTTAACTCACTGACTGATGACCGGGTGCTGAAAGAAGTTATGCGACTGGGGGCGTTGCAGAAAAAACTCTTTATCGACGGCAAGCGTGTCGGGGACAGAGAGTATGCGGAGGTGCTGATCGCTATTACGGAGTATCACCGTGCCCTGTTATCCAGGCTTATGGCAGATTAG",
34 "hypothetical": true,
35 "seq_stats": {
36 "molecular_weight": 12072.90819999999,
37 "isoelectric_point": 10.367886161804197
38 },
39 "id": "IHHALPPJCH_1",
40 "locus": "IHHALP_00005"
41 },
42 {
43 "type": "cds",
44 "contig": "contig_1",
45 "start": 971,
46 "stop": 141,
47 "strand": "-",
48 "gene": null,
49 "product": "hypothetical protein",
50 "start_type": "ATG",
51 "rbs_motif": "AGGA/GGAG/GAGG",
52 "db_xrefs": [],
53 "frame": 1,
54 "aa": "MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELAEEQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKKSKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNFDKINVNLLSKATSFALKKGIPI",
55 "aa_hexdigest": "1e7027cbe48346e06a83e802a9385584",
56 "edge": true,
57 "nt": "ATGAACAAGCAGCAGCAAACTGCACTCAACATGGCGGGATTCATAAAAAGCCAGAGCCTGACGCTGCTCGAAAAACTGGACGCACTCGATGCTGACGAGCAGGCCACCATGTGTGAGAAGCTGCACGAACTCGCAGAAGAACAAATAGAAGCAATAAAAAATAAAGATAAAACTTTATTTATTGTCTATGCTACTGATATTTATAGCCCGAGCGAATTTTTCTCAAAAATCGAATCCGACTTGAAGAAAAAGAAAAGCAAGGGTGATGTTTTTTTTGATTTAATAATTCCTAACGGTGGAAAAAAAGATCGTTACGTCTATACGTCATTTAATGGCGAGAAGTTTTCAAGTTACACATTAAACAAAGTTACGAAAACTGATGAATATAATGATTTATCTGAGCTCTCGGCTTCGTTCTTTAAAAAAAACTTTGATAAGATCAACGTAAACCTTCTATCCAAAGCCACATCATTTGCTTTGAAAAAAGGCATTCCAATATAA",
58 "hypothetical": true,
59 "seq_stats": {
60 "molecular_weight": 18866.325799999995,
61 "isoelectric_point": 7.696590614318848
62 },
63 "id": "IHHALPPJCH_2",
64 "locus": "IHHALP_00010"
65 }
66 ],
67 "sequences": [
68 {
69 "id": "contig_1",
70 "description": "[completeness=complete] [topology=circular] [gcode=11]",
71 "sequence": "TTCTTCTGCGAGTTCGTGCAGCTTCTCACACATGGTGGCCTGCTCGTCAGCATCGAGTGCGTCCAGTTTTTCGAGCAGCGTCAGGCTCTGGCTTTTTATGAATCCCGCCATGTTGAGTGCAGTTTGCTGCTGCTTGTTCATCTTTCTGTTTTCTCCGTTCTGTCTGTCATCTGCGTCGTGTGATTATATCGCGCACCACTTTTCGACCGTCTTACCGCCGGTATTCTGCCGACGGACATTTCAGTCAGACAACACTGTCACTGCCAAAAAACAGCAGTGCTTTGTTGGTAATTCGAACTTGCAGACAGGACAGGATGTGCAATTGTTATACCGCGCATACATGCACGCTATTACAATTACCCTGGTCAGGGCTTCGCCCCGACACCCCATGTCAGATACGGAGCCATGTTTTATGACAAAACGAAGTGGAAGTAATACGCGCAGGCGGGCTATCAGTCGCCCTGTTCGTCTGACGGCAGAAGAAGACCAGGAAATCAGAAAAAGGGCTGCTGAATGCGGCAAGACCGTTTCTGGTTTTTTACGGGCGGCAGCTCTCGGTAAGAAAGTTAACTCACTGACTGATGACCGGGTGCTGAAAGAAGTTATGCGACTGGGGGCGTTGCAGAAAAAACTCTTTATCGACGGCAAGCGTGTCGGGGACAGAGAGTATGCGGAGGTGCTGATCGCTATTACGGAGTATCACCGTGCCCTGTTATCCAGGCTTATGGCAGATTAGCTTCCCGGAGAGAAACTGTCGAAAACAGACGGTATGAACGCCGTAAGCCCCCAAACCGATCGCCATTCACTTTCATGCATAGCTATGCAGTGAGCTGAAAGCGATCCTGACGCATTTTTCCGGTTTACCCCGGGGAAAACATCTCTTTTTGCGGTGTCTGCGTCAGAATCGCGTTCAGCGCGTTTTGGCGGTGCGCGTAATGAGACGTTATGGTAAATGTCTTCTGGCTTGATATTATATTGGAATGCCTTTTTTCAAAGCAAATGATGTGGCTTTGGATAGAAGGTTTACGTTGATCTTATCAAAGTTTTTTTTAAAGAACGAAGCCGAGAGCTCAGATAAATCATTATATTCATCAGTTTTCGTAACTTTGTTTAATGTGTAACTTGAAAACTTCTCGCCATTAAATGACGTATAGACGTAACGATCTTTTTTTCCACCGTTAGGAATTATTAAATCAAAAAAAACATCACCCTTGCTTTTCTTTTTCTTCAAGTCGGATTCGATTTTTGAGAAAAATTCGCTCGGGCTATAAATATCAGTAGCATAGACAATAAATAAAGTTTTATCTTTATTTTTTATTGCTTCTATTTG",
72 "length": 1330,
73 "complete": true,
74 "type": "plasmid",
75 "topology": "circular",
76 "simple_id": "contig_1",
77 "orig_id": "NC_002127.1",
78 "orig_description": "Escherichia coli O157:H7 str. Sakai plasmid pOSAK1, complete sequence",
79 "name": "unnamed1"
80 }
81 ],
82 "run": {
83 <<<<<<< HEAD:tools/bakta/test-data/tmp/TEST_1.json
84 <<<<<<< HEAD:tools/bakta/test-data/TEST_1/TEST_1.json
85 "start": "2022-12-19 10:20:24",
86 "end": "2022-12-19 10:20:25"
87 =======
88 <<<<<<< HEAD:tools/bakta/test-data/TEST_4/TEST_4.json
89 "start": "2022-09-16 07:32:48",
90 "end": "2022-09-16 07:32:50"
91 =======
92 "start": "2022-12-21 14:34:38",
93 "end": "2022-12-21 14:34:39"
94 >>>>>>> f1bb03fb2 (update bakta for plot output and to reduce number of output files):tools/bakta/test-data/tmp/TEST_1.json
95 >>>>>>> 17d4de2b8 (update bakta for plot output and to reduce number of output files):tools/bakta/test-data/tmp/TEST_1.json
96 =======
97 "start": "2022-12-21 19:53:30",
98 "end": "2022-12-21 19:53:31"
99 >>>>>>> 195c8410c (change option for plot):tools/bakta/test-data/TEST_1/TEST_1.json
100 },
101 "version": {
102 "bakta": "1.6.1",
103 "db": "4.0"
104 }
105 }