Mercurial > repos > iuc > krakentools_extract_kraken_reads
diff test-data/sample.tabular @ 0:519e0835abd7 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/krakentools commit 92c58a65005708fbd56b27b86969c01a1258ddb9
| author | iuc |
|---|---|
| date | Wed, 15 Mar 2023 18:18:27 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sample.tabular Wed Mar 15 18:18:27 2023 +0000 @@ -0,0 +1,300 @@ + 38.00 513 513 U 0 unclassified + 62.00 837 1 R 1 root + 61.93 836 27 R1 131567 cellular organisms + 56.00 756 3 D 2759 Eukaryota + 55.33 747 3 D1 33154 Opisthokonta + 29.78 402 0 K 33208 Metazoa + 29.78 402 0 K1 6072 Eumetazoa + 29.78 402 0 K2 33213 Bilateria + 29.78 402 0 K3 33511 Deuterostomia + 29.78 402 0 P 7711 Chordata + 29.78 402 0 P1 89593 Craniata + 29.78 402 0 P2 7742 Vertebrata + 29.78 402 0 P3 7776 Gnathostomata + 29.78 402 0 P4 117570 Teleostomi + 29.78 402 0 P5 117571 Euteleostomi + 29.78 402 0 P6 8287 Sarcopterygii + 29.78 402 0 P7 1338369 Dipnotetrapodomorpha + 29.78 402 0 P8 32523 Tetrapoda + 29.78 402 0 P9 32524 Amniota + 29.78 402 0 C 40674 Mammalia + 29.78 402 0 C1 32525 Theria + 29.78 402 0 C2 9347 Eutheria + 29.78 402 0 C3 1437010 Boreoeutheria + 29.78 402 0 C4 314146 Euarchontoglires + 29.78 402 0 O 9443 Primates + 29.78 402 0 O1 376913 Haplorrhini + 29.78 402 0 O2 314293 Simiiformes + 29.78 402 0 O3 9526 Catarrhini + 29.78 402 0 O4 314295 Hominoidea + 29.78 402 0 F 9604 Hominidae + 29.78 402 0 F1 207598 Homininae + 29.78 402 0 G 9605 Homo + 29.78 402 402 S 9606 Homo sapiens + 25.33 342 0 K 4751 Fungi + 25.33 342 1 K1 451864 Dikarya + 25.26 341 0 P 4890 Ascomycota + 25.19 340 0 P1 716545 saccharomyceta + 24.89 336 0 P2 147537 Saccharomycotina + 24.89 336 0 C 4891 Saccharomycetes + 24.89 336 1 O 4892 Saccharomycetales + 24.67 333 3 F 4893 Saccharomycetaceae + 24.37 329 11 G 4930 Saccharomyces + 21.70 293 0 S 4932 Saccharomyces cerevisiae + 21.70 293 293 S1 559292 Saccharomyces cerevisiae S288C + 1.11 15 15 S 27291 Saccharomyces paradoxus + 0.74 10 10 S 1080349 Saccharomyces eubayanus + 0.07 1 0 G 4910 Kluyveromyces + 0.07 1 0 S 4911 Kluyveromyces marxianus + 0.07 1 1 S1 1003335 Kluyveromyces marxianus DMKU3-1042 + 0.07 1 0 F 410830 Trichomonascaceae + 0.07 1 0 G 410829 Sugiyamaella + 0.07 1 1 S 796027 Sugiyamaella lignohabitans + 0.07 1 0 O1 2916678 CUG-Ser1 clade + 0.07 1 0 F 766764 Debaryomycetaceae + 0.07 1 0 F1 1535325 Candida/Lodderomyces clade + 0.07 1 0 G 1535326 Candida + 0.07 1 0 S 42374 Candida dubliniensis + 0.07 1 1 S1 573826 Candida dubliniensis CD36 + 0.30 4 0 P2 147538 Pezizomycotina + 0.30 4 0 P3 716546 leotiomyceta + 0.22 3 0 P4 715989 sordariomyceta + 0.22 3 0 C 147550 Sordariomycetes + 0.15 2 0 C1 222544 Sordariomycetidae + 0.07 1 0 O 5139 Sordariales + 0.07 1 0 F 5148 Sordariaceae + 0.07 1 0 G 5140 Neurospora + 0.07 1 0 S 5141 Neurospora crassa + 0.07 1 1 S1 367110 Neurospora crassa OR74A + 0.07 1 0 O 639021 Magnaporthales + 0.07 1 0 F 2528436 Pyriculariaceae + 0.07 1 0 G 48558 Pyricularia + 0.07 1 1 S 1578925 Pyricularia pennisetigena + 0.07 1 1 C1 222543 Hypocreomycetidae + 0.07 1 0 C 147545 Eurotiomycetes + 0.07 1 0 C1 451871 Eurotiomycetidae + 0.07 1 0 O 5042 Eurotiales + 0.07 1 0 F 1131492 Aspergillaceae + 0.07 1 0 G 5052 Aspergillus + 0.07 1 1 S 1069201 Aspergillus luchuensis + 0.07 1 0 P1 451866 Taphrinomycotina + 0.07 1 0 C 147554 Schizosaccharomycetes + 0.07 1 0 O 34346 Schizosaccharomycetales + 0.07 1 0 F 4894 Schizosaccharomycetaceae + 0.07 1 0 G 4895 Schizosaccharomyces + 0.07 1 1 S 4896 Schizosaccharomyces pombe + 0.37 5 0 D1 2698737 Sar + 0.37 5 0 D2 33630 Alveolata + 0.37 5 0 P 5794 Apicomplexa + 0.30 4 0 C 422676 Aconoidasida + 0.30 4 0 O 5819 Haemosporida + 0.30 4 0 F 1639119 Plasmodiidae + 0.30 4 0 G 5820 Plasmodium + 0.15 2 0 G1 418103 Plasmodium (Plasmodium) + 0.07 1 1 S 5855 Plasmodium vivax + 0.07 1 1 S 5858 Plasmodium malariae + 0.07 1 1 S 208452 Plasmodium coatneyi + 0.07 1 0 G1 418101 Plasmodium (Vinckeia) + 0.07 1 0 S 5825 Plasmodium chabaudi + 0.07 1 1 S1 31271 Plasmodium chabaudi chabaudi + 0.07 1 0 C 1280412 Conoidasida + 0.07 1 0 C1 5796 Coccidia + 0.07 1 0 O 75739 Eucoccidiorida + 0.07 1 0 O1 423054 Eimeriorina + 0.07 1 0 F 35082 Cryptosporidiidae + 0.07 1 0 G 5806 Cryptosporidium + 0.07 1 0 S 5807 Cryptosporidium parvum + 0.07 1 1 S1 353152 Cryptosporidium parvum Iowa II + 0.07 1 0 D1 554915 Amoebozoa + 0.07 1 0 P 2605435 Evosea + 0.07 1 0 C 142796 Eumycetozoa + 0.07 1 0 C1 33083 Dictyostelia + 0.07 1 0 O 2058949 Dictyosteliales + 0.07 1 0 F 2058185 Dictyosteliaceae + 0.07 1 0 G 5782 Dictyostelium + 0.07 1 0 S 44689 Dictyostelium discoideum + 0.07 1 1 S1 352472 Dictyostelium discoideum AX4 + 3.78 51 1 D 2 Bacteria + 1.63 22 2 D1 1783272 Terrabacteria group + 1.26 17 0 P 1239 Firmicutes + 0.67 9 0 C 186801 Clostridia + 0.67 9 0 O 186802 Eubacteriales + 0.30 4 0 F 31979 Clostridiaceae + 0.30 4 1 G 1485 Clostridium + 0.07 1 0 G1 2614128 unclassified Clostridium + 0.07 1 1 S 1702238 Clostridium sp. MF28 + 0.07 1 0 S 1501 Clostridium pasteurianum + 0.07 1 1 S1 86416 Clostridium pasteurianum BC1 + 0.07 1 0 S 217159 Clostridium carboxidivorans + 0.07 1 1 S1 536227 Clostridium carboxidivorans P7 + 0.15 2 0 F 186804 Peptostreptococcaceae + 0.15 2 0 G 1870884 Clostridioides + 0.07 1 1 S 1496 Clostridioides difficile + 0.07 1 1 G1 2635829 unclassified Clostridioides + 0.07 1 0 F 186803 Lachnospiraceae + 0.07 1 0 G 1506553 Lachnoclostridium + 0.07 1 1 S 89153 [Clostridium] hylemonae + 0.07 1 0 F 216572 Oscillospiraceae + 0.07 1 0 G 2039302 Monoglobus + 0.07 1 1 S 1981510 Monoglobus pectinilyticus + 0.07 1 0 O1 538999 Eubacteriales incertae sedis + 0.07 1 0 F 543314 Eubacteriales Family XIII. Incertae Sedis + 0.07 1 0 G 86331 Mogibacterium + 0.07 1 1 S 86332 Mogibacterium pumilum + 0.59 8 0 C 91061 Bacilli + 0.44 6 0 O 1385 Bacillales + 0.22 3 0 F 186817 Bacillaceae + 0.15 2 0 G 1386 Bacillus + 0.15 2 2 G1 86661 Bacillus cereus group + 0.07 1 0 G 45667 Halobacillus + 0.07 1 1 S 45668 Halobacillus litoralis + 0.15 2 0 F 90964 Staphylococcaceae + 0.07 1 0 G 1279 Staphylococcus + 0.07 1 1 S 33028 Staphylococcus saccharolyticus + 0.07 1 0 G 227979 Jeotgalicoccus + 0.07 1 1 S 1461582 Jeotgalicoccus saudimassiliensis + 0.07 1 0 F 186822 Paenibacillaceae + 0.07 1 0 G 44249 Paenibacillus + 0.07 1 1 S 116718 Paenibacillus azoreducens + 0.15 2 0 O 186826 Lactobacillales + 0.07 1 0 F 1300 Streptococcaceae + 0.07 1 0 G 1357 Lactococcus + 0.07 1 0 S 1358 Lactococcus lactis + 0.07 1 0 S1 1360 Lactococcus lactis subsp. lactis + 0.07 1 1 S2 889971 Lactococcus lactis subsp. lactis K214 + 0.07 1 0 F 33958 Lactobacillaceae + 0.07 1 0 G 46255 Weissella + 0.07 1 1 S 1249 Weissella paramesenteroides + 0.15 2 0 P 544448 Tenericutes + 0.07 1 0 C 31969 Mollicutes + 0.07 1 0 O 2085 Mycoplasmatales + 0.07 1 0 F 2092 Mycoplasmataceae + 0.07 1 0 G 2093 Mycoplasma + 0.07 1 0 G1 2683645 unclassified Mycoplasma + 0.07 1 1 S 353851 Mycoplasma sp. Ms02 + 0.07 1 0 O 2790996 Mycoplasmoidales + 0.07 1 0 F 2895623 Metamycoplasmataceae + 0.07 1 0 G 2895509 Metamycoplasma + 0.07 1 1 S 142649 Metamycoplasma phocicerebrale + 0.07 1 0 D2 1798711 Cyanobacteria/Melainabacteria group + 0.07 1 0 P 1117 Cyanobacteria + 0.07 1 0 P1 1301283 Oscillatoriophycideae + 0.07 1 0 O 1118 Chroococcales + 0.07 1 0 F 1890464 Chroococcaceae + 0.07 1 0 G 268175 Chondrocystis + 0.07 1 0 G1 2648896 unclassified Chondrocystis + 0.07 1 1 S 2005460 Chondrocystis sp. NIES-4102 + 1.33 18 0 P 1224 Proteobacteria + 1.04 14 0 C 1236 Gammaproteobacteria + 0.44 6 0 O 91347 Enterobacterales + 0.15 2 0 F 543 Enterobacteriaceae + 0.07 1 0 G 561 Escherichia + 0.07 1 0 S 562 Escherichia coli + 0.07 1 0 S1 83333 Escherichia coli K-12 + 0.07 1 1 S2 595496 Escherichia coli BW2952 + 0.07 1 0 G 544 Citrobacter + 0.07 1 0 G1 2644389 unclassified Citrobacter + 0.07 1 1 S 2742657 Citrobacter sp. RHBSTW-00599 + 0.15 2 0 F 1903409 Erwiniaceae + 0.07 1 0 G 551 Erwinia + 0.07 1 1 S 1922217 Candidatus Erwinia haradaeae + 0.07 1 0 G 32199 Buchnera + 0.07 1 0 S 9 Buchnera aphidicola + 0.07 1 0 S1 118117 Buchnera aphidicola (Uroleucon ambrosiae) + 0.07 1 1 S2 1005057 Buchnera aphidicola str. Ua (Uroleucon ambrosiae) + 0.07 1 0 F 1903411 Yersiniaceae + 0.07 1 0 G 34037 Rahnella + 0.07 1 0 S 34038 Rahnella aquatilis + 0.07 1 1 S1 745277 Rahnella aquatilis CIP 78.65 = ATCC 33071 + 0.07 1 0 F 1903414 Morganellaceae + 0.07 1 0 G 29487 Photorhabdus + 0.07 1 1 S 291112 Photorhabdus asymbiotica + 0.37 5 0 O 72273 Thiotrichales + 0.37 5 0 F 34064 Francisellaceae + 0.37 5 0 G 262 Francisella + 0.37 5 5 S 549298 Francisella halioticida + 0.07 1 0 C1 118884 Gammaproteobacteria incertae sedis + 0.07 1 0 G 204619 Candidatus Nardonella + 0.07 1 1 S 1972134 endosymbiont of Sipalinus gigas + 0.07 1 0 O 135623 Vibrionales + 0.07 1 0 F 641 Vibrionaceae + 0.07 1 0 G 662 Vibrio + 0.07 1 0 G1 717610 Vibrio harveyi group + 0.07 1 1 S 512649 Vibrio azureus + 0.07 1 0 O 135625 Pasteurellales + 0.07 1 0 F 712 Pasteurellaceae + 0.07 1 0 G 416916 Aggregatibacter + 0.07 1 0 G1 2639383 unclassified Aggregatibacter + 0.07 1 1 S 712150 Aggregatibacter sp. oral taxon 513 + 0.15 2 0 C 28216 Betaproteobacteria + 0.07 1 0 O 80840 Burkholderiales + 0.07 1 0 F 119060 Burkholderiaceae + 0.07 1 0 G 106589 Cupriavidus + 0.07 1 1 S 68895 Cupriavidus basilensis + 0.07 1 0 C1 119066 Betaproteobacteria incertae sedis + 0.07 1 0 G 33055 Candidatus Kinetoplastibacterium + 0.07 1 1 S 33056 Candidatus Kinetoplastibacterium crithidii + 0.15 2 0 P1 68525 delta/epsilon subdivisions + 0.15 2 0 C 29547 Epsilonproteobacteria + 0.15 2 0 O 213849 Campylobacterales + 0.15 2 0 F 72294 Campylobacteraceae + 0.15 2 0 G 194 Campylobacter + 0.15 2 2 S 1813019 Campylobacter hepaticus + 0.52 7 0 D1 1783270 FCB group + 0.52 7 0 D2 68336 Bacteroidetes/Chlorobi group + 0.52 7 0 P 976 Bacteroidetes + 0.22 3 0 C 117743 Flavobacteriia + 0.22 3 0 O 200644 Flavobacteriales + 0.07 1 0 F 39782 Blattabacteriaceae + 0.07 1 0 G 34098 Blattabacterium + 0.07 1 1 S 1653831 Blattabacterium cuenoti + 0.07 1 0 F 49546 Flavobacteriaceae + 0.07 1 0 G 336276 Olleya + 0.07 1 1 G1 2615019 unclassified Olleya + 0.07 1 0 F 2762318 Weeksellaceae + 0.07 1 0 F1 2782232 Chryseobacterium group + 0.07 1 0 G 59732 Chryseobacterium + 0.07 1 0 G1 2593645 unclassified Chryseobacterium + 0.07 1 1 S 2759528 Chryseobacterium sp. DH-B6 + 0.15 2 0 C 200643 Bacteroidia + 0.15 2 2 O 171549 Bacteroidales + 0.07 1 0 C 117747 Sphingobacteriia + 0.07 1 0 O 200666 Sphingobacteriales + 0.07 1 0 F 84566 Sphingobacteriaceae + 0.07 1 0 G 28453 Sphingobacterium + 0.07 1 1 S 28454 Sphingobacterium multivorum + 0.07 1 0 C 768503 Cytophagia + 0.07 1 0 O 768507 Cytophagales + 0.07 1 0 F 200667 Flammeovirgaceae + 0.07 1 0 G 59739 Flammeovirga + 0.07 1 1 S 373891 Flammeovirga kamogawensis + 0.15 2 0 P 32066 Fusobacteria + 0.15 2 0 C 203490 Fusobacteriia + 0.15 2 0 O 203491 Fusobacteriales + 0.15 2 0 F 203492 Fusobacteriaceae + 0.15 2 0 G 848 Fusobacterium + 0.07 1 0 S 851 Fusobacterium nucleatum + 0.07 1 1 S1 76857 Fusobacterium nucleatum subsp. polymorphum + 0.07 1 1 S 1583098 Fusobacterium hwasookii + 0.07 1 0 P 203691 Spirochaetes + 0.07 1 0 C 203692 Spirochaetia + 0.07 1 0 O 1643686 Brachyspirales + 0.07 1 0 F 143786 Brachyspiraceae + 0.07 1 0 G 29521 Brachyspira + 0.07 1 1 S 159 Brachyspira hyodysenteriae + 0.15 2 0 D 2157 Archaea + 0.07 1 0 P 28890 Euryarchaeota + 0.07 1 0 P1 2290931 Stenosarchaea group + 0.07 1 0 C 224756 Methanomicrobia + 0.07 1 0 O 94695 Methanosarcinales + 0.07 1 0 F 2206 Methanosarcinaceae + 0.07 1 0 G 2207 Methanosarcina + 0.07 1 0 S 2208 Methanosarcina barkeri + 0.07 1 1 S1 1434107 Methanosarcina barkeri 3 + 0.07 1 0 D1 1783275 TACK group + 0.07 1 0 P 651137 Thaumarchaeota + 0.07 1 0 C 1643678 Nitrososphaeria + 0.07 1 0 O 1033996 Nitrososphaerales + 0.07 1 0 F 1033997 Nitrososphaeraceae + 0.07 1 0 G 1826864 Candidatus Nitrosocosmicus + 0.07 1 1 S 1798806 Candidatus Nitrosocosmicus franklandus