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kraken2 results
Young edited this page Feb 9, 2024
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2 revisions
per sample ${sample}_kraken2_report.txt
15.55 104265 104265 U 0 unclassified
84.45 566464 723 R 1 root
84.35 565741 20 R1 131567 cellular organisms
84.31 565470 4196 D 2 Bacteria
83.62 560879 292 D1 1783272 Terrabacteria group
83.55 560426 54 P 1239 Bacillota
83.52 560178 128 C 91061 Bacilli
83.48 559932 161 O 1385 Bacillales
83.45 559698 1498 F 186817 Bacillaceae
82.78 555247 188958 G 1386 Bacillus
53.73 360404 146564 G1 86661 Bacillus cereus group
17.43 116878 81406 S 1428 Bacillus thuringiensis
2.26 15139 15139 S1 529122 Bacillus thuringiensis YBT-1518
1.56 10433 0 S1 180869 Bacillus thuringiensis serovar pakistani
1.56 10433 10433 S2 527027 Bacillus thuringiensis serovar pakistani str. T13001
0.62 4153 4153 S1 1423143 Bacillus thuringiensis Bt18247
0.28 1888 19 S1 1444 Bacillus thuringiensis serovar tenebrionis
0.28 1869 1869 S2 529121 Bacillus thuringiensis serovar tenebrionis str. YBT-1765
0.09 616 616 S1 1442 Bacillus thuringiensis serovar tolworthi
0.09 607 607 S1 527019 Bacillus thuringiensis IBL 200
0.07 483 483 S1 132266 Bacillus thuringiensis serovar higo
0.07 470 470 S1 132264 Bacillus thuringiensis serovar darmstadiensis
0.06 402 402 S1 1218175 Bacillus thuringiensis HD-771
0.05 318 79 S1 257985 Bacillus thuringiensis serovar andalousiensis
0.04 239 239 S2 527032 Bacillus thuringiensis serovar andalousiensis BGSC 4AW1
0.03 205 3 S1 29339 Bacillus thuringiensis serovar kurstaki
0.02 105 105 S2 570416 Bacillus thuringiensis serovar kurstaki str. YBT-1520
0.01 47 47 S2 714359 Bacillus thuringiensis BMB171
0.00 29 29 S2 1261129 Bacillus thuringiensis serovar kurstaki str. HD-1
0.00 20 20 S2 527023 Bacillus thuringiensis serovar kurstaki str. T03a001
0.00 1 1 S2 1279365 Bacillus thuringiensis serovar kurstaki str. HD73
0.02 167 167 S1 1417985 Bacillus thuringiensis LM1212
0.02 123 0 S1 180882 Bacillus thuringiensis serovar monterrey
0.02 123 123 S2 527022 Bacillus thuringiensis serovar monterrey BGSC 4AJ1
0.01 95 95 S1 1257079 Bacillus thuringiensis DAR 81934
0.01 91 91 S1 1440 Bacillus thuringiensis serovar alesti
0.01 89 0 S1 180854 Bacillus thuringiensis serovar huazhongensis
0.01 89 89 S2 527030 Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
0.01 71 0 S1 1432 Bacillus thuringiensis serovar thuringiensis
0.01 52 52 S2 527025 Bacillus thuringiensis serovar thuringiensis str. T01001
0.00 19 19 S2 1286404 Bacillus thuringiensis serovar thuringiensis str. IS5056
0.01 35 0 S1 1001229 Bacillus thuringiensis serovar chinensis
0.01 35 35 S2 541229 Bacillus thuringiensis serovar chinensis CT-43
0.00 25 25 S1 527021 Bacillus thuringiensis Bt407
0.00 20 20 S1 29338 Bacillus thuringiensis serovar galleriae
0.00 17 17 S1 527020 Bacillus thuringiensis IBL 4222
0.00 10 0 S1 180874 Bacillus thuringiensis serovar pondicheriensis
0.00 10 10 S2 527029 Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1
0.00 5 5 S1 180850 Bacillus thuringiensis serovar indiana
0.00 2 0 S1 180877 Bacillus thuringiensis serovar pulsiensis
0.00 2 2 S2 527028 Bacillus thuringiensis serovar pulsiensis BGSC 4CC1
0.00 2 2 S1 1217737 Bacillus thuringiensis HD-789
0.00 2 2 S1 412694 Bacillus thuringiensis str. Al Hakam
0.00 1 1 S1 1452729 Bacillus thuringiensis HD1002
0.00 1 0 S1 1434 Bacillus thuringiensis serovar berliner
0.00 1 1 S2 527031 Bacillus thuringiensis serovar berliner ATCC 10792
0.00 1 0 S1 1441 Bacillus thuringiensis serovar morrisoni
0.00 1 1 S2 1461024 Bacillus thuringiensis serovar morrisoni str. 4AA1
0.00 1 0 S1 180856 [Bacillus thuringiensis] serovar konkukian
0.00 1 1 S2 281309 [Bacillus thuringiensis] serovar konkukian str. 97-27
10.47 70250 67638 S 1396 Bacillus cereus
0.06 404 404 S1 526967 Bacillus cereus 172560W
0.04 284 284 S1 526980 Bacillus cereus ATCC 10876
0.04 265 265 S1 526991 Bacillus cereus AH676
0.03 209 209 S1 1003239 Bacillus cereus C1L
0.03 208 208 S1 405532 Bacillus cereus B4264
0.03 201 201 S1 526969 Bacillus cereus m1550
0.02 153 153 S1 526986 Bacillus cereus Rock3-44
0.02 141 141 S1 526987 Bacillus cereus Rock4-2
0.02 128 128 S1 526985 Bacillus cereus Rock3-42
0.02 113 0 S1 1179100 Bacillus cereus biovar anthracis
0.02 113 113 S2 637380 Bacillus cereus biovar anthracis str. CI
0.02 106 106 S1 526989 Bacillus cereus F65185
0.01 71 71 S1 526982 Bacillus cereus Rock1-15
0.01 63 63 S1 526974 Bacillus cereus BDRD-ST24
0.01 51 51 S1 222523 Bacillus cereus ATCC 10987
0.01 42 42 S1 1217984 Bacillus cereus FRI-35
0.01 41 41 S1 526994 Bacillus cereus AH1273
0.01 34 34 S1 405535 Bacillus cereus AH820
0.00 24 24 S1 526992 Bacillus cereus AH1271
0.00 22 22 S1 1126681 Bacillus cereus F
0.00 21 21 S1 526978 Bacillus cereus BDRD-Cer4
0.00 7 7 S1 226900 Bacillus cereus ATCC 14579
0.00 5 5 S1 1454382 Bacillus cereus D17
0.00 5 5 S1 288681 Bacillus cereus E33L
0.00 3 3 S1 526970 Bacillus cereus BGSC 6E1
0.00 3 3 S1 405531 Bacillus cereus G9842
0.00 2 2 S1 347495 Bacillus cereus F837/76
0.00 1 1 S1 526977 Bacillus cereus ATCC 4342
0.00 1 1 S1 526993 Bacillus cereus AH1272
0.00 1 1 S1 451709 Bacillus cereus 03BB108
0.00 1 1 S1 572264 Bacillus cereus 03BB102
0.00 1 1 S1 870739 Bacillus cereus VPC1401
0.00 1 1 S1 269801 Bacillus cereus G9241
2.47 16552 16523 S 1405 Bacillus mycoides
0.00 21 21 S1 526997 Bacillus mycoides DSM 2048
0.00 8 8 S1 315730 Bacillus mycoides KBAB4
0.54 3607 3607 S 1890302 Bacillus wiedmannii
0.33 2192 1514 G2 2750818 unclassified Bacillus cereus group
0.09 592 592 S 2217832 Bacillus sp. JAS24-2
0.01 40 40 S 2053832 Bacillus sp. HBCD-sjtu
0.00 32 32 S 1839798 Bacillus sp. FDAARGOS_235
0.00 12 12 S 1892404 Bacillus sp. ABP14
0.00 2 2 S 2217825 Bacillus sp. AR4-2
0.16 1091 1076 S 155322 Bacillus toyonensis
0.00 15 15 S1 1415784 Bacillus toyonensis BCT-7112
0.10 652 634 S 1392 Bacillus anthracis
0.00 16 16 S1 1412842 Bacillus anthracis 9080-G
0.00 1 1 S1 1452727 Bacillus anthracis str. Turkey32
0.00 1 1 S1 261591 Bacillus anthracis str. Vollum
0.08 570 521 S 64104 Bacillus pseudomycoides
0.01 49 49 S1 527000 Bacillus pseudomycoides DSM 12442
0.07 458 458 S 2026188 Bacillus tropicus
0.06 395 395 S 580165 Bacillus cytotoxicus
0.06 386 386 S 2026191 Bacillus luti
0.05 318 318 S 2026186 Bacillus paranthracis
0.03 206 206 S 2026193 Bacillus nitratireducens
0.02 129 40 S 658666 Bacillus bombysepticus
0.01 89 89 S1 1330043 Bacillus bombysepticus str. Wang
0.01 66 66 S 2026189 Bacillus albus
0.01 52 52 S 2026187 Bacillus pacificus
0.01 38 38 S 2026190 Bacillus mobilis
0.82 5491 290 G1 185979 unclassified Bacillus (in: firmicutes)
0.60 4018 4018 S 2856338 Bacillus sp. FDAARGOS_1420
0.04 255 255 S 2789208 Bacillus sp. N447-1
0.03 176 176 S 2499213 Bacillus sp. BD59S
0.02 157 157 S 2928154 Bacillus sp. ZJS3
0.01 99 99 S 2009331 Bacillus sp. MD-5
0.01 63 63 S 2846779 Bacillus sp. NP247
0.01 58 58 S 2796141 Bacillus sp. HNR-4
0.01 50 50 S 2080759 Bacillus sp. DU-106
0.01 43 43 S 2933563 Bacillus sp. PGP15
0.01 37 37 S 1868655 Bacillus sp. B25(2016b)
0.01 34 34 S 2925318 Bacillus sp. N5-665
0.00 29 29 S 2874284 Bacillus sp. CRB-7
0.00 26 26 S 98228 Bacillus sp. OxB-1
0.00 25 25 S 2576356 Bacillus sp. FDAARGOS_527
0.00 22 22 S 2660750 Bacillus sp. A260
0.00 21 21 S 2529386 Bacillus sp. SYJ
0.00 20 20 S 2233998 Bacillus sp. COPE52
0.00 17 17 S 2608254 Bacillus sp. BS98
0.00 17 17 S 1806216 Bacillus sp. RZ2MS9
0.00 16 16 S 486398 Bacillus sp. S3
0.00 6 6 S 2933872 Bacillus sp. JY-23
0.00 4 4 S 2709784 Bacillus sp. KH172YL63
0.00 2 2 S 2841656 Bacillus sp. ZHX3
0.00 2 2 S 352858 Bacillus sp. Y1
0.00 2 2 S 2876713 Bacillus sp. 41-22
0.00 1 1 S 2231056 Bacillus sp. CR71
0.00 1 1 S 2587848 Bacillus sp. THAF10
0.06 369 0 G1 653685 Bacillus subtilis group
0.05 344 341 S 1423 Bacillus subtilis
0.00 2 2 S1 135461 Bacillus subtilis subsp. subtilis
0.00 1 1 S1 1496303 Bacillus subtilis subsp. globigii
0.00 21 11 G2 1938374 Bacillus amyloliquefaciens group
0.00 5 1 S 1390 Bacillus amyloliquefaciens
0.00 4 4 S1 692420 Bacillus amyloliquefaciens DSM 7 = ATCC 23350
0.00 5 5 S 492670 Bacillus velezensis
0.00 2 0 G2 653388 Bacillus mojavensis subgroup
0.00 2 2 S 260554 Bacillus halotolerans
0.00 1 0 S 1452 Bacillus atrophaeus
0.00 1 1 S1 1529886 Bacillus atrophaeus subsp. globigii
0.00 1 1 S 1648923 Bacillus paralicheniformis
0.00 6 6 S 1479 Bacillus smithii
0.00 5 5 S 1983719 Bacillus shivajii
0.00 4 4 S 1408 Bacillus pumilus
0.00 2 2 S 1547283 Bacillus weihaiensis
0.00 2 2 S 2672567 Bacillus aquiflavi
0.00 1 0 G1 1792192 Bacillus altitudinis complex
0.00 1 1 S 293387 Bacillus altitudinis
0.00 1 1 S 2487276 Bacillus cabrialesii
0.00 1 1 S 1441095 Bacillus gobiensis
0.00 1 1 S 561879 Bacillus safensis
0.00 1 0 S 324767 Bacillus infantis
0.00 1 1 S1 1367477 Bacillus infantis NRRL B-14911
0.00 1 1 S 1455 Bacillus badius
0.17 1124 338 G 2800373 Priestia
0.11 738 737 S 1404 Priestia megaterium
0.00 1 1 S1 1006007 Priestia megaterium WSH-002
0.01 47 47 S 412384 Priestia aryabhattai
0.00 1 1 S 86664 Priestia flexa
0.15 978 976 G 2675233 Metabacillus
0.00 2 2 S 2567941 Metabacillus sediminilitoris
0.07 484 0 G 2675229 Peribacillus
0.06 410 410 S 450367 Peribacillus frigoritolerans
0.01 72 72 S 421767 Peribacillus butanolivorans
0.00 2 2 S 228899 Peribacillus asahii
0.03 213 0 G 400634 Lysinibacillus
0.03 169 169 S 2590012 Lysinibacillus agricola
0.01 34 0 G1 2636778 unclassified Lysinibacillus
0.00 32 32 S 2929796 Lysinibacillus sp. PLM2
0.00 1 1 S 2169540 Lysinibacillus sp. 2017
0.00 1 1 S 2892541 Lysinibacillus sp. CD3-6
0.00 8 8 S 2086577 Lysinibacillus timonensis
0.00 1 1 S 1421 Lysinibacillus sphaericus
0.00 1 1 S 28031 Lysinibacillus fusiformis
0.02 133 0 G 2675230 Cytobacillus
0.01 94 94 S 1399 Cytobacillus firmus
0.01 39 39 S 859143 Cytobacillus kochii
0.00 2 0 G 3033930 Fervidibacillus
0.00 2 2 S 2980026 Fervidibacillus albus
0.00 2 0 G 2837485 Evansella
0.00 1 0 S 1413 Evansella cellulosilytica
0.00 1 1 S1 649639 Evansella cellulosilytica DSM 2522
0.00 1 0 G1 2837486 unclassified Evansella
0.00 1 1 S 2924033 Evansella sp. LMS18
0.00 2 0 G 1329200 Fictibacillus
0.00 2 2 S 255247 Fictibacillus arsenicus
0.00 2 0 G 175304 Lentibacillus
0.00 2 0 G1 2614679 unclassified Lentibacillus
0.00 2 2 S 2911514 Lentibacillus sp. ZS110521
0.00 1 0 G 1906945 Parageobacillus
0.00 1 1 S 1295642 Parageobacillus genomosp. 1
0.00 1 0 G 200903 Paraliobacillus
0.00 1 1 S 2213194 Paraliobacillus zengyii
0.00 1 0 G 289201 Pontibacillus
0.00 1 0 G1 2628296 unclassified Pontibacillus
0.00 1 1 S 2777185 Pontibacillus sp. ALD_SL1
0.00 1 0 G 2817139 Weizmannia
0.00 1 1 S 1398 Weizmannia coagulans
0.00 1 0 G 379065 Caldalkalibacillus
0.00 1 0 S 296745 Caldalkalibacillus thermarum
0.00 1 1 S1 986075 Caldalkalibacillus thermarum TA2.A1
0.00 1 1 G 2685905 Salicibibacter
0.00 1 1 G 2675234 Alkalihalobacillus
0.00 1 0 G 2837506 Niallia
0.00 1 1 S 1397 Niallia circulans
0.00 1 0 G 2675232 Neobacillus
0.00 1 0 G1 2675272 unclassified Neobacillus
0.00 1 1 S 3047873 Neobacillus sp. WH10
0.00 1 0 G 1221880 Psychrobacillus
0.00 1 1 S 2283160 Psychrobacillus glaciei
0.00 1 0 G 129337 Geobacillus
0.00 1 1 S 129338 Geobacillus subterraneus
0.00 1 0 G 150247 Anoxybacillus
0.00 1 1 S 294699 Anoxybacillus amylolyticus
0.00 1 0 G 2837504 Heyndrickxia
0.00 1 1 S 1476025 Heyndrickxia vini
0.01 55 1 F 90964 Staphylococcaceae
0.00 33 2 G 1279 Staphylococcus
0.00 11 10 S 1280 Staphylococcus aureus
0.00 1 1 S1 282458 Staphylococcus aureus subsp. aureus MRSA252
0.00 8 8 S 29382 Staphylococcus cohnii
0.00 5 5 S 2781774 Staphylococcus lloydii
0.00 3 3 S 1282 Staphylococcus epidermidis
0.00 2 2 S 1294 Staphylococcus muscae
0.00 1 1 S 29379 Staphylococcus auricularis
0.00 1 1 S 29385 Staphylococcus saprophyticus
0.00 21 21 G 69965 Macrococcus
0.00 9 0 F 186822 Paenibacillaceae
0.00 8 2 G 44249 Paenibacillus
0.00 3 1 S 1406 Paenibacillus polymyxa
0.00 2 2 S1 1413214 Paenibacillus polymyxa SQR-21
0.00 2 2 S 1619311 Paenibacillus physcomitrellae
0.00 1 1 S 2020716 Paenibacillus konkukensis
0.00 1 1 G 329857 Cohnella
0.00 4 0 F 186818 Planococcaceae
0.00 3 0 G 648800 Solibacillus
0.00 2 0 S 76853 Solibacillus silvestris
0.00 2 2 S1 1002809 Solibacillus silvestris StLB046
0.00 1 0 G1 2637870 unclassified Solibacillus
0.00 1 1 S 2048654 Solibacillus sp. R5-41
0.00 1 0 G 1372 Planococcus
0.00 1 0 G1 2662419 unclassified Planococcus (in: firmicutes)
0.00 1 1 S 2908840 Planococcus sp. 107-1
0.00 2 0 F 186820 Listeriaceae
0.00 2 0 G 1637 Listeria
0.00 2 2 S 1639 Listeria monocytogenes
0.00 2 0 O1 539002 Bacillales incertae sedis
0.00 1 0 O2 539738 Bacillales Family XI. Incertae Sedis
0.00 1 0 G 1378 Gemella
0.00 1 1 G1 2624949 unclassified Gemella
0.00 1 0 O2 539742 Bacillales Family XII. Incertae Sedis
0.00 1 1 G 33986 Exiguobacterium
0.00 1 0 F 186824 Thermoactinomycetaceae
0.00 1 0 G 1677050 Novibacillus
0.00 1 1 S 1471761 Novibacillus thermophilus
0.02 118 8 O 186826 Lactobacillales
0.01 88 0 F 81852 Enterococcaceae
0.01 67 0 G 1350 Enterococcus
0.01 36 35 S 1352 Enterococcus faecium
0.00 1 1 S1 333849 Enterococcus faecium DO
0.00 30 30 S 1351 Enterococcus faecalis
0.00 1 0 G1 2608891 unclassified Enterococcus
0.00 1 1 S 2603296 Enterococcus sp. DA9
0.00 21 0 G 51668 Tetragenococcus
0.00 19 19 S 526944 Tetragenococcus osmophilus
0.00 2 2 S 51669 Tetragenococcus halophilus
0.00 12 1 F 33958 Lactobacillaceae
0.00 4 1 G 1578 Lactobacillus
0.00 2 2 S 147802 Lactobacillus iners
0.00 1 0 S 1604 Lactobacillus amylovorus
0.00 1 1 S1 1423723 Lactobacillus amylovorus DSM 20531
0.00 2 0 G 2759736 Lacticaseibacillus
0.00 2 2 S 47715 Lacticaseibacillus rhamnosus
0.00 2 0 G 2767885 Latilactobacillus
0.00 1 0 S 1599 Latilactobacillus sakei
0.00 1 1 S1 214326 Latilactobacillus sakei subsp. sakei
0.00 1 1 S 28038 Latilactobacillus curvatus
0.00 1 0 G 2767842 Lactiplantibacillus
0.00 1 1 S 1590 Lactiplantibacillus plantarum
0.00 1 0 G 2767888 Liquorilactobacillus
0.00 1 1 S 82688 Liquorilactobacillus nagelii
0.00 1 1 G 2767886 Levilactobacillus
0.00 10 0 F 1300 Streptococcaceae
0.00 9 1 G 1301 Streptococcus
0.00 2 2 S 1349 Streptococcus uberis
0.00 1 1 S 1314 Streptococcus pyogenes
0.00 1 1 S 1346 Streptococcus iniae
0.00 1 0 G1 671232 Streptococcus anginosus group
0.00 1 1 S 1328 Streptococcus anginosus
0.00 1 1 S 1313 Streptococcus pneumoniae
0.00 1 0 S 1308 Streptococcus thermophilus
0.00 1 1 S1 1436725 Streptococcus thermophilus TH1477
0.00 1 1 S 1307 Streptococcus suis
0.00 1 1 G 1357 Lactococcus
0.03 185 0 C 186801 Clostridia
0.03 174 18 O 186802 Eubacteriales
0.01 94 0 F 31979 Clostridiaceae
0.01 93 1 G 1485 Clostridium
0.01 81 0 S 36839 Clostridium felsineum
0.01 81 81 S1 1121310 Clostridium felsineum DSM 794
0.00 4 4 S 1519 Clostridium tyrobutyricum
0.00 2 1 S 1502 Clostridium perfringens
0.00 1 1 S1 451751 Clostridium perfringens B
0.00 1 1 S 1491 Clostridium botulinum
0.00 1 1 S 394958 Clostridium taeniosporum
0.00 1 1 S 238834 Clostridium estertheticum
0.00 1 1 S 1534 Clostridium kluyveri
0.00 1 0 S 1501 Clostridium pasteurianum
0.00 1 1 S1 86416 Clostridium pasteurianum BC1
0.00 1 0 G 1890059 Serpentinicella
0.00 1 1 S 1734049 Serpentinicella alkaliphila
0.01 59 0 F 216572 Oscillospiraceae
0.01 58 0 G 946234 Flavonifractor
0.01 58 58 S 292800 Flavonifractor plautii
0.00 1 0 G 1263 Ruminococcus
0.00 1 1 S 2564099 Ruminococcus bovis
0.00 2 0 F 186803 Lachnospiraceae
0.00 1 0 G 28050 Lachnospira
0.00 1 0 S 39485 Lachnospira eligens
0.00 1 1 S1 515620 [Eubacterium] eligens ATCC 27750
0.00 1 0 G 572511 Blautia
0.00 1 0 S 418240 Blautia wexlerae
0.00 1 1 S1 1121115 Blautia wexlerae DSM 19850
0.00 1 0 F 186804 Peptostreptococcaceae
0.00 1 0 G 44259 Filifactor
0.00 1 0 S 143361 Filifactor alocis
0.00 1 1 S1 546269 Filifactor alocis ATCC 35896
0.00 11 0 O 68295 Thermoanaerobacterales
0.00 11 0 F 543371 Thermoanaerobacterales Family III. Incertae Sedis
0.00 11 0 G 28895 Thermoanaerobacterium
0.00 11 11 S 1517 Thermoanaerobacterium thermosaccharolyticum
0.00 7 0 C 526524 Erysipelotrichia
0.00 7 0 O 526525 Erysipelotrichales
0.00 5 0 F 128827 Erysipelotrichaceae
0.00 3 0 G 1647 Erysipelothrix
0.00 3 3 S 1648 Erysipelothrix rhusiopathiae
0.00 1 1 G 174708 Allobaculum
0.00 1 0 G 2678885 Faecalibacillus
0.00 1 1 S 1982626 Faecalibacillus intestinalis
0.00 2 0 F 2810281 Turicibacteraceae
0.00 2 2 G 191303 Turicibacter
0.00 1 1 C 909932 Negativicutes
0.00 1 0 C 1737404 Tissierellia
0.00 1 0 C1 1737407 Tissierellia incertae sedis
0.00 1 1 G 1582879 Ezakiella
0.02 118 1 P 201174 Actinomycetota
0.02 117 0 C 1760 Actinomycetes
0.01 49 0 O 85006 Micrococcales
0.01 42 0 F 85016 Cellulomonadaceae
0.01 42 0 G 1707 Cellulomonas
0.01 42 42 S 2968083 Cellulomonas xiejunii
0.00 7 0 F 85023 Microbacteriaceae
0.00 7 0 G 256818 Gulosibacter
0.00 7 7 S 256821 Gulosibacter molinativorax
0.00 31 0 O 85011 Kitasatosporales
0.00 31 0 F 2062 Streptomycetaceae
0.00 31 0 G 1883 Streptomyces
0.00 27 0 G1 2593676 unclassified Streptomyces
0.00 26 26 S 1964449 Streptomyces sp. 3211
0.00 1 1 S 2837956 Streptomyces sp. FIT100
0.00 4 4 S 40318 Streptomyces nodosus
0.00 21 0 O 85004 Bifidobacteriales
0.00 21 0 F 31953 Bifidobacteriaceae
0.00 21 21 G 1678 Bifidobacterium
0.00 16 0 O 85007 Mycobacteriales
0.00 16 0 F 1762 Mycobacteriaceae
0.00 14 0 G 1763 Mycobacterium
0.00 12 0 S 29311 Mycobacterium haemophilum
0.00 12 12 S1 1202450 Mycobacterium haemophilum DSM 44634
0.00 1 1 S 1768 Mycobacterium kansasii
0.00 1 0 G1 77643 Mycobacterium tuberculosis complex
0.00 1 1 S 1773 Mycobacterium tuberculosis
0.00 2 0 G 1866885 Mycolicibacterium
0.00 1 0 S 1772 Mycolicibacterium smegmatis
0.00 1 1 S1 1214915 Mycolicibacterium smegmatis MKD8
0.00 1 1 S 39687 Mycolicibacterium austroafricanum
0.01 39 0 D2 1798711 Cyanobacteriota/Melainabacteria group
0.01 39 0 P 1117 Cyanobacteriota
0.01 39 1 C 3028117 Cyanophyceae
0.01 34 0 O 1890424 Synechococcales
0.00 32 0 F 1890429 Acaryochloridaceae
0.00 32 0 G 155977 Acaryochloris
0.00 32 0 G1 2631661 unclassified Acaryochloris
0.00 32 32 S 2740837 Acaryochloris sp. 'Moss Beach'
0.00 2 0 F 1890426 Synechococcaceae
0.00 2 0 G 1129 Synechococcus
0.00 2 0 G1 2626047 unclassified Synechococcus
0.00 2 2 S 321332 Synechococcus sp. JA-2-3B'a(2-13)
0.00 4 0 C1 1301283 Oscillatoriophycideae
0.00 3 0 O 1150 Oscillatoriales
0.00 2 0 F 1892252 Microcoleaceae
0.00 2 0 G 54304 Planktothrix
0.00 2 0 S 1160 Planktothrix agardhii
0.00 2 2 S1 388467 Planktothrix agardhii NIVA-CYA 126/8
0.00 1 0 F 1892255 Gomontiellaceae
0.00 1 0 G 241421 Crinalium
0.00 1 0 S 241425 Crinalium epipsammum
0.00 1 1 S1 1173022 Crinalium epipsammum PCC 9333
0.00 1 0 O 1118 Chroococcales
0.00 1 0 F 1890449 Microcystaceae
0.00 1 0 G 1125 Microcystis
0.00 1 1 S 1126 Microcystis aeruginosa
0.00 3 0 P 544448 Mycoplasmatota
0.00 3 0 C 31969 Mollicutes
0.00 3 0 O 2085 Mycoplasmatales
0.00 3 1 F 2092 Mycoplasmataceae
0.00 2 0 G 2093 Mycoplasma
0.00 1 0 G1 656088 Mycoplasma mycoides group
0.00 1 0 S 2095 Mycoplasma capricolum
0.00 1 1 S1 40480 Mycoplasma capricolum subsp. capripneumoniae
0.00 1 1 S 519450 Mycoplasma anserisalpingitidis
0.00 1 0 P 200795 Chloroflexota
0.00 1 0 C 292625 Anaerolineae
0.00 1 0 O 292629 Anaerolineales
0.00 1 0 F 292628 Anaerolineaceae
0.00 1 0 G 2019482 Brevefilum
0.00 1 1 S 1986204 Brevefilum fermentans
0.03 184 0 D1 1783270 FCB group
0.03 184 0 D2 68336 Bacteroidota/Chlorobiota group
0.03 184 105 P 976 Bacteroidota
0.01 75 0 C 117743 Flavobacteriia
0.01 75 0 O 200644 Flavobacteriales
0.01 69 0 F 49546 Flavobacteriaceae
0.01 50 0 G 104267 Tenacibaculum
0.00 33 33 S 2781243 Tenacibaculum finnmarkense
0.00 17 17 S 3018315 Tenacibaculum retecalamus
0.00 16 0 G 83612 Psychroflexus
0.00 16 0 G1 196864 unclassified Psychroflexus
0.00 16 16 S 2777186 Psychroflexus sp. ALD_RP9
0.00 2 0 G 237 Flavobacterium
0.00 1 1 S 2906078 Flavobacterium oreochromis
0.00 1 0 G1 196869 unclassified Flavobacterium
0.00 1 1 S 2746225 Flavobacterium sp. K5-23
0.00 1 0 G 221065 Kordia
0.00 1 1 S 1218801 Kordia antarctica
0.00 6 0 F 2762318 Weeksellaceae
0.00 6 0 F1 2782232 Chryseobacterium group
0.00 6 0 G 2782231 Kaistella
0.00 6 6 S 266749 Kaistella jeonii
0.00 4 0 C 1853228 Chitinophagia
0.00 4 0 O 1853229 Chitinophagales
0.00 4 0 F 563835 Chitinophagaceae
0.00 3 0 G 2698688 Paraflavitalea
0.00 3 3 S 2315862 Paraflavitalea soli
0.00 1 0 G 379899 Niabella
0.00 1 1 S 1176587 Niabella ginsenosidivorans
0.02 142 1 P 1224 Pseudomonadota
0.01 96 1 C 1236 Gammaproteobacteria
0.01 51 0 O 72274 Pseudomonadales
0.01 51 0 F 135621 Pseudomonadaceae
0.01 51 0 G 286 Pseudomonas
0.01 51 0 G1 196821 unclassified Pseudomonas
0.01 37 37 S 2886361 Pseudomonas sp. HN8-3
0.00 14 14 S 2895490 Pseudomonas sp. B21-048
0.00 26 0 O 91347 Enterobacterales
0.00 15 4 F 543 Enterobacteriaceae
0.00 4 0 F1 2890311 Klebsiella/Raoultella group
0.00 4 3 G 570 Klebsiella
0.00 1 1 S 573 Klebsiella pneumoniae
0.00 4 0 G 561 Escherichia
0.00 4 4 S 562 Escherichia coli
0.00 3 1 G 590 Salmonella
0.00 2 0 S 28901 Salmonella enterica
0.00 2 0 S1 59201 Salmonella enterica subsp. enterica
0.00 1 1 S2 149391 Salmonella enterica subsp. enterica serovar Braenderup
0.00 1 1 S2 28144 Salmonella enterica subsp. enterica serovar Derby
0.00 10 0 F 1903414 Morganellaceae
0.00 10 0 G 586 Providencia
0.00 9 9 S 588 Providencia stuartii
0.00 1 1 S 587 Providencia rettgeri
0.00 1 0 F 1903411 Yersiniaceae
0.00 1 0 G 613 Serratia
0.00 1 1 S 458197 Serratia nematodiphila
0.00 10 0 O 135623 Vibrionales
0.00 10 8 F 641 Vibrionaceae
0.00 2 1 G 662 Vibrio
0.00 1 0 G1 2614977 unclassified Vibrio
0.00 1 1 S 2751178 Vibrio sp. B1FLJ16
0.00 4 0 O 135624 Aeromonadales
0.00 4 0 F 84642 Aeromonadaceae
0.00 4 0 G 642 Aeromonas
0.00 3 3 S 645 Aeromonas salmonicida
0.00 1 1 S 648 Aeromonas caviae
0.00 2 0 O 1692040 Acidiferrobacterales
0.00 2 0 F 1692041 Acidiferrobacteraceae
0.00 2 0 G 986106 Acidiferrobacter
0.00 2 0 G1 2640868 unclassified Acidiferrobacter
0.00 2 2 S 1281578 Acidiferrobacter sp. SPIII_3
0.00 1 0 O 135622 Alteromonadales
0.00 1 0 F 267890 Shewanellaceae
0.00 1 0 G 22 Shewanella
0.00 1 0 S 70864 Shewanella pealeana
0.00 1 1 S1 398579 Shewanella pealeana ATCC 700345
0.00 1 0 O 135625 Pasteurellales
0.00 1 0 F 712 Pasteurellaceae
0.00 1 0 G 745 Pasteurella
0.00 1 0 S 747 Pasteurella multocida
0.00 1 0 S1 44283 Pasteurella multocida subsp. multocida
0.00 1 1 S2 1455592 Pasteurella multocida subsp. multocida PMTB2.1
0.00 28 0 C 28216 Betaproteobacteria
0.00 27 0 O 80840 Burkholderiales
0.00 27 0 F 119060 Burkholderiaceae
0.00 27 0 G 93217 Pandoraea
0.00 27 27 S 93222 Pandoraea sputorum
0.00 1 0 O 206351 Neisseriales
0.00 1 0 F 1499392 Chromobacteriaceae
0.00 1 0 G 400947 Deefgea
0.00 1 1 S 2865840 Deefgea tanakiae
0.00 17 0 C 28211 Alphaproteobacteria
0.00 9 0 O 204441 Rhodospirillales
0.00 8 0 F 433 Acetobacteraceae
0.00 8 8 G 522 Acidiphilium
0.00 1 0 F 41295 Rhodospirillaceae
0.00 1 0 G 111830 Defluviicoccus
0.00 1 1 S 111831 Defluviicoccus vanus
0.00 7 0 O 54526 Candidatus Pelagibacterales
0.00 7 0 F 1655514 Pelagibacteraceae
0.00 7 0 G 198251 Candidatus Pelagibacter
0.00 7 0 G1 2647897 unclassified Candidatus Pelagibacter
0.00 7 7 S 1002672 Candidatus Pelagibacter sp. IMCC9063
0.00 1 0 O 356 Hyphomicrobiales
0.00 1 0 F 335928 Xanthobacteraceae
0.00 1 0 G 99 Ancylobacter
0.00 1 0 G1 2626613 unclassified Ancylobacter
0.00 1 1 S 2995166 Ancylobacter sp. SL191
0.01 38 0 P 32066 Fusobacteriota
0.01 38 0 C 203490 Fusobacteriia
0.01 38 0 O 203491 Fusobacteriales
0.01 38 0 F 203492 Fusobacteriaceae
0.01 38 0 G 848 Fusobacterium
0.01 38 38 S 76857 Fusobacterium polymorphum
0.00 25 0 P 29547 Campylobacterota
0.00 25 0 C 3031852 Epsilonproteobacteria
0.00 25 8 O 213849 Campylobacterales
0.00 17 0 F 72294 Campylobacteraceae
0.00 17 1 G 194 Campylobacter
0.00 15 15 S 374106 Campylobacter cuniculorum
0.00 1 1 S 197 Campylobacter jejuni
0.00 4 0 P 203691 Spirochaetota
0.00 4 0 C 203692 Spirochaetia
0.00 3 0 O 136 Spirochaetales
0.00 1 0 F 137 Spirochaetaceae
0.00 1 0 G 2834378 Entomospira
0.00 1 1 S 2719989 Entomospira culicis
0.00 1 0 F 1643685 Borreliaceae
0.00 1 0 G 64895 Borreliella
0.00 1 1 S 29518 Borreliella afzelii
0.00 1 0 F 2791015 Sphaerochaetaceae
0.00 1 1 G 399320 Sphaerochaeta
0.00 1 0 O 1643686 Brachyspirales
0.00 1 0 F 143786 Brachyspiraceae
0.00 1 0 G 29521 Brachyspira
0.00 1 1 S 1287055 Brachyspira hampsonii
0.00 2 0 D1 1783257 PVC group
0.00 1 0 P 134625 Kiritimatiellota
0.00 1 0 C 1921781 Kiritimatiellia
0.00 1 0 O 1921782 Kiritimatiellales
0.00 1 0 F 1921783 Kiritimatiellaceae
0.00 1 0 G 1921784 Kiritimatiella
0.00 1 1 S 1307763 Kiritimatiella glycovorans
0.00 1 0 P 203682 Planctomycetota
0.00 1 0 C 666505 Phycisphaerae
0.00 1 1 O 2483366 Sedimentisphaerales
0.03 211 0 D 2759 Eukaryota
0.03 211 0 D1 33154 Opisthokonta
0.03 211 0 K 33208 Metazoa
0.03 211 0 K1 6072 Eumetazoa
0.03 211 0 K2 33213 Bilateria
0.03 211 0 K3 33511 Deuterostomia
0.03 211 0 P 7711 Chordata
0.03 211 0 P1 89593 Craniata
0.03 211 0 P2 7742 Vertebrata
0.03 211 0 P3 7776 Gnathostomata
0.03 211 0 P4 117570 Teleostomi
0.03 211 0 P5 117571 Euteleostomi
0.03 211 0 P6 8287 Sarcopterygii
0.03 211 0 P7 1338369 Dipnotetrapodomorpha
0.03 211 0 P8 32523 Tetrapoda
0.03 211 0 P9 32524 Amniota
0.03 211 0 C 40674 Mammalia
0.03 211 0 C1 32525 Theria
0.03 211 0 C2 9347 Eutheria
0.03 211 0 C3 1437010 Boreoeutheria
0.03 211 0 C4 314146 Euarchontoglires
0.03 211 0 O 9443 Primates
0.03 211 0 O1 376913 Haplorrhini
0.03 211 0 O2 314293 Simiiformes
0.03 211 0 O3 9526 Catarrhini
0.03 211 0 O4 314295 Hominoidea
0.03 211 0 F 9604 Hominidae
0.03 211 0 F1 207598 Homininae
0.03 211 0 G 9605 Homo
0.03 211 211 S 9606 Homo sapiens
0.01 40 0 D 2157 Archaea
0.01 40 0 P 28890 Euryarchaeota
0.01 36 0 P1 2290931 Stenosarchaea group
0.01 36 0 C 183963 Halobacteria
0.01 36 0 O 1644060 Natrialbales
0.01 36 36 F 1644061 Natrialbaceae
0.00 4 0 P1 2283794 Methanomada group
0.00 4 0 C 183939 Methanococci
0.00 4 0 O 2182 Methanococcales
0.00 4 0 F 2183 Methanococcaceae
0.00 4 0 G 2184 Methanococcus
0.00 4 4 S 39152 Methanococcus maripaludis
per run (kraken2_summary.csv)
Sample,Percentage of fragments,Number of fragments,Number of fragments assigned directly to this taxon,Rank code,NCBI taxonomic ID number,Scientific name
82300018,10.47,70250,67638,S,1396,Bacillus_cereus
82300018,17.43,116878,81406,S,1428,Bacillus_thuringiensis
SRR11725329,42.12,226608,224762,S,562,Escherichia_coli
SRR13643280,52.72,277780,277225,S,470,Acinetobacter_baumannii
SRR14436834,25.84,56011,52581,S,40324,Stenotrophomonas_maltophilia
SRR14634837,22.93,133316,128702,S,573,Klebsiella_pneumoniae
SRR7738178,13.14,64174,64139,S,624,Shigella_sonnei
SRR7889058,19.67,109778,98319,S,28901,Salmonella_enterica
-
- amrfinderplus
- bbduk
- blastn
- blobtools_*
- core_genome_evaluation
- circulocov
- datasets_*
- drprg
- elgato
- emmtyper
- fastani
- fastp
- fastqc
- heatcluster
- iqtree2
- kaptive
- kleborate
- kraken2
- mash_*
- mashtree
- mlst
- multiqc
- mykrobe
- panaroo
- pbptyper
- phytreeviz
- plasmidfinder
- prokka
- quast
- seqsero2
- serotypefinder
- shigatyper
- snp_dists
- spades