Commit 3480c670 authored by Amine  GHOZLANE's avatar Amine GHOZLANE
Browse files

Renewed the mock dataset

parent 255818bd
Pipeline #16076 passed with stage
in 7 minutes and 43 seconds
......@@ -522,7 +522,7 @@ function(request) {
checkboxInput("NoTaxoFile","No taxonomy table",value=FALSE),
selectInput("DemoDataset",h6(strong('Or select a dataset')),
c("..."="...",
"ZymoBIOMICS mock 16S: Volant et al. 2019"=c("a1a9748bebd0|silva|Volant et al. 2019 in review"),
"ZymoBIOMICS mock 16S: Volant et al. 2019"=c("10b0238abee0d|silva|Volant et al. 2019 in review"),
"Afribiota: Vonaesch et al. 2018"=c("1be225fc935c7|silva|Vonaesch et al. 2018"),
"DNA extraction protocols 16S: Angebault et al. 2018"=c("eec74b27d162|silva|Angebault et al. 2018"),
"DNA extraction protocols ITS1: Angebault et al. 2018"=c("3580714197f5|unite|Angebault et al. 2018"),
......
{"type": "16S", "path_R2": "/tmp/RtmpL5CsGt/Masque_files_R2", "phredthres": 20, "annotationstrand": "both", "aFmax": 0.945, "aPmin": 0.75, "aSmin": 0.98, "aKmin": 0.75, "minreadlength": 50, "mail": "amine.ghozlane@pasteur.fr", "clusteringthreshold": 0.97, "aOmax": 0.865, "contaminant": "/tmp/RtmpL5CsGt/file10b0238abee0d_contaminant.fasta", "name": "file10b0238abee0d", "pattern_R1": "_L001_R1_001.fastq", "clusteringstrand": "both", "aCmin": 0.785, "minampliconlength": 50, "aPmax": 0.785, "dreptype": "--derep_prefix", "maxampliconlength": 0, "data_history_name": "data_shaman_2186_131", "minoverlap": 10, "aOmin": 0.82, "aGmin": 0.945, "path_R1": "/tmp/RtmpL5CsGt/Masque_files_R1", "aFmin": 0.865, "paired": true, "result_history_name": "shaman_2186_131", "mincorrect": 80, "minabundance": 4, "host": "", "aGmax": 0.98, "aCmax": 0.82}
\ No newline at end of file
{"id": "None","format": "Biological Observation Matrix 1.0.0","format_url": "http://biom-format.org","matrix_type": "sparse","generated_by": "BIOM-Format 2.1.5","date": "2019-09-27T16:22:13.040342","type": "OTU table","matrix_element_type": "float","shape": [37, 12],"data": 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[{"id": "OTU_1", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Lactobacillales", "f__Lactobacillaceae", "g__Lactobacillus", "s__"]}},{"id": "OTU_10", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_11", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Betaproteobacteria", "o__Burkholderiales", "f__Comamonadaceae", "g__", "s__"]}},{"id": "OTU_12", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_13", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Salmonella", "s__"]}},{"id": "OTU_14", "metadata": {"taxonomy": ["k__Bacteria", "p__Actinobacteria", "c__Actinobacteria", "o__Actinomycetales", "f__Propionibacteriaceae", "g__Propionibacterium", "s__acnes"]}},{"id": "OTU_15", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__", "s__"]}},{"id": "OTU_16", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_17", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_18", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Listeriaceae", "g__", "s__"]}},{"id": "OTU_19", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_2", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Staphylococcaceae", "g__Staphylococcus", "s__aureus"]}},{"id": "OTU_20", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_21", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_22", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_23", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Lactobacillales", "f__Lactobacillaceae", "g__Lactobacillus", "s__"]}},{"id": "OTU_24", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Lactobacillales", "f__Lactobacillaceae", "g__Lactobacillus", "s__"]}},{"id": "OTU_25", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_26", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Pseudomonadales", "f__Pseudomonadaceae", "g__Pseudomonas", "s__"]}},{"id": "OTU_27", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Bacillaceae", "g__", "s__"]}},{"id": "OTU_28", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Bacillaceae", "g__Bacillus", "s__"]}},{"id": "OTU_29", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Bacillaceae", "g__Bacillus", "s__"]}},{"id": "OTU_3", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Listeriaceae", "g__", "s__"]}},{"id": "OTU_30", "metadata": {"taxonomy": ["k__Bacteria", "p__Bacteroidetes", "c__Bacteroidia", "o__Bacteroidales", "f_-7", "g__", "s__"]}},{"id": "OTU_31", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_32", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Alphaproteobacteria", "o__Sphingomonadales", "f__Sphingomonadaceae", "g__", "s__"]}},{"id": "OTU_33", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Salmonella", "s__"]}},{"id": "OTU_34", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}},{"id": "OTU_35", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Lactobacillales", "f__Enterococcaceae", "g__Enterococcus", "s__"]}},{"id": "OTU_36", "metadata": {"taxonomy": ["k__Bacteria", "p__Cyanobacteria", "c__4C0d-2", "o__MLE1-12", "f__", "g__", "s__"]}},{"id": "OTU_37", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Listeriaceae", "g__", "s__"]}},{"id": "OTU_4", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Bacillales", "f__Bacillaceae", "g__Bacillus", "s__"]}},{"id": "OTU_5", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Salmonella", "s__enterica"]}},{"id": "OTU_6", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__", "s__"]}},{"id": "OTU_7", "metadata": {"taxonomy": ["k__Bacteria", "p__Firmicutes", "c__Bacilli", "o__Lactobacillales", "f__Enterococcaceae", "g__Enterococcus", "s__"]}},{"id": "OTU_8", "metadata": {"taxonomy": ["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Pseudomonadales", "f__Pseudomonadaceae", "g__Pseudomonas", "s__"]}},{"id": "OTU_9", "metadata": {"taxonomy": ["k__", "p__", "c__", "o__", "f__", "g__", "s__"]}}],"columns": [{"id": "1ng-25cycles-1", "metadata": null},{"id": "1ng-25cycles-2", "metadata": null},{"id": "1ng-25cycles-3", "metadata": null},{"id": "1ng-30cycles-1", "metadata": null},{"id": "1ng-30cycles-2", "metadata": null},{"id": "1ng-30cycles-3", "metadata": null},{"id": "zero5ng-25cycles-1", "metadata": null},{"id": "zero5ng-25cycles-2", "metadata": null},{"id": "zero5ng-25cycles-3", "metadata": null},{"id": "zero5ng-30cycles-1", "metadata": null},{"id": "zero5ng-30cycles-2", "metadata": null},{"id": "zero5ng-30cycles-3", "metadata": null}]}
\ No newline at end of file
OTU Kingdom Phylum Class Order Family Genus Specie
OTU_15 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_45 Bacteria Cyanobacteria 4C0d-2 MLE1-12
OTU_14 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae
OTU_36 Bacteria Cyanobacteria 4C0d-2 MLE1-12
OTU_4 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_20 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Comamonadaceae
OTU_19 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_25 Bacteria Firmicutes
OTU_1 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_42 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_70 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_59 Bacteria Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae
OTU_60 Bacteria Firmicutes Bacilli Gemellales
OTU_67 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_46 Bacteria Firmicutes Bacilli Bacillales Bacillaceae
OTU_65 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Sneathia
OTU_44 Bacteria Bacteroidetes Bacteroidia Bacteroidales S24-7
OTU_18 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella
OTU_49 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_66 Bacteria Firmicutes Bacilli Lactobacillales
OTU_40 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_38 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_11 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Comamonadaceae
OTU_15 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_23 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_32 Bacteria Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae
OTU_37 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_2 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus aureus
OTU_11 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae
OTU_24 Bacteria Actinobacteria Actinobacteria Actinomycetales Propionibacteriaceae Propionibacterium acnes
OTU_6 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_5 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella enterica
OTU_69 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_43 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_53 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_3 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_47 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_8 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas
OTU_61 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_9 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_12 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_55 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_62 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_13 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella
OTU_26 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas
OTU_28 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_30 Bacteria Bacteroidetes Bacteroidia Bacteroidales S24-7
OTU_7 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_52 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_18 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_14 Bacteria Actinobacteria Actinobacteria Actinomycetales Propionibacteriaceae Propionibacterium acnes
OTU_27 Bacteria Firmicutes Bacilli Bacillales Bacillaceae
OTU_24 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_28 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_29 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_3 Bacteria Firmicutes Bacilli Bacillales Listeriaceae
OTU_5 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella enterica
OTU_33 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella
OTU_8 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas
OTU_6 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_35 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_1 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
(((OTU_37:0.052809311,(OTU_3:0.000000007,OTU_18:0.041027602)0.896:0.015864195)0.943:0.023417041,(OTU_28:0.004094553,((OTU_23:0.026369253,(OTU_1:0.000000007,OTU_24:0.047435799)0.929:0.017506033)0.992:0.083374588,(OTU_36:0.228710150,((OTU_32:0.158848804,(((OTU_8:0.001439017,OTU_26:0.039716104)1.000:0.124740256,((OTU_5:0.000000007,(OTU_13:0.023499909,OTU_33:0.018440412)0.990:0.024326115)0.973:0.061547973,(OTU_6:0.000000007,OTU_15:0.047397834)0.734:0.016643858)0.996:0.106571159)0.913:0.055655170,OTU_11:0.135232532)0.750:0.049878315)0.974:0.092398407,(OTU_30:0.412951251,OTU_14:0.223454379)0.568:0.034071695)0.483:0.037651812)1.000:0.190151579)0.130:0.028898052)0.992:0.041319696)0.534:0.016221638,(OTU_7:0.005396663,OTU_35:0.038531341)0.985:0.042658209,((OTU_29:0.042498382,(OTU_4:0.000000007,OTU_27:0.009729624)0.831:0.011000250)0.985:0.041747819,OTU_2:0.088099128)0.795:0.019204656);
#OTU ID 1ng-25cycles-1 1ng-25cycles-2 1ng-25cycles-3 1ng-30cycles-1 1ng-30cycles-2 1ng-30cycles-3 zero5ng-25cycles-1 zero5ng-25cycles-2 zero5ng-25cycles-3 zero5ng-30cycles-1 zero5ng-30cycles-2 zero5ng-30cycles-3
OTU_1 17452 27132 22629 34080 44292 26501 37086 38991 27500 43561 25487 6835
OTU_10 7 5 17 39 8 6 17 0 22 58 17 3
OTU_11 0 6 3 8 9 8 12 18 5 13 6 0
OTU_12 2 1 3 28 1 2 5 1 9 10 13 3
OTU_13 19 39 33 76 115 37 42 62 24 76 47 5
OTU_14 1 4 3 10 4 2 14 6 1 15 5 3
OTU_15 11 29 14 55 74 41 18 43 19 52 52 4
OTU_16 3 1 0 14 4 0 1 0 1 8 5 2
OTU_17 0 2 0 4 4 0 1 0 2 9 5 0
OTU_18 23 62 30 79 149 57 51 67 34 63 90 10
OTU_19 0 0 0 0 5 1 0 1 1 7 0 0
OTU_2 15876 23669 22093 29730 43593 24110 38547 42863 30778 39804 28689 4778
OTU_20 0 0 0 3 0 2 3 0 0 2 2 0
OTU_21 5 0 0 4 4 0 0 0 1 5 0 0
OTU_22 0 0 0 2 0 1 1 0 0 1 2 0
OTU_23 111 221 114 414 591 245 186 311 109 506 319 61
OTU_24 10 17 12 35 56 32 13 32 6 53 21 7
OTU_25 2 3 0 2 0 2 0 0 2 2 0 0
OTU_26 13 23 11 54 78 31 22 33 17 61 37 5
OTU_27 1 3 2 4 7 1 1 3 1 2 4 0
OTU_28 32 72 42 162 252 72 45 70 49 194 125 4
OTU_29 2 4 1 16 15 8 4 1 0 20 15 3
OTU_3 13151 22170 17543 23653 36990 19779 32699 39009 27168 30811 23093 3795
OTU_30 0 0 0 1 0 0 1 2 3 0 10 0
OTU_31 0 0 5 2 0 0 2 0 0 3 0 0
OTU_32 0 0 2 0 0 0 6 1 1 5 2 0
OTU_33 3 13 8 29 30 12 9 32 11 25 22 0
OTU_34 0 0 0 0 0 0 0 0 7 0 0 0
OTU_35 37 57 24 104 109 56 42 51 21 151 86 3
OTU_36 0 0 0 0 1 0 0 0 0 4 2 0
OTU_37 17 44 12 101 137 71 46 51 32 122 72 17
OTU_4 13341 23379 16062 28818 41802 20963 39069 38352 25868 39205 26624 2795
OTU_5 11534 20049 16044 23534 35798 15248 27516 33632 24154 31495 22770 1540
OTU_6 8183 13707 10964 16276 24625 12822 18929 23174 15187 21971 15719 2336
OTU_7 6576 12025 8160 12256 19570 9422 15132 18330 11771 15540 11897 2182
OTU_8 5082 9047 7033 10887 16871 6722 12133 15601 9962 15972 11023 651
OTU_9 13 0 12 22 3 5 22 4 16 43 8 3
Type Count Mean_length Median_length
Amplicon 2227104 428 427
Dereplication 922879 428 427
Singleton_removed 22422 429 427
Chimera_removed 19501 429 427
OTU 37 366 427
silva_annotation 25
greengenes_annotation 25
rdp_annotation 36
sample Raw_reads_fwd Raw_mean_length_fwd Raw_median_length_fwd Raw_reads_rev Raw_mean_length_rev Raw_median_length_rev Trimmed Trimmed_fwd Trimmed_rev Removed Removed_fwd Removed_rev Filtered_reads_fwd Filtered_mean_length_fwd Filtered_median_length_fwd Filtered_reads_rev Filtered_mean_length_rev Filtered_median_length_rev Combined pairs Uncombined pairs Selected_dereplication Selected_singleton Selected_chimera Selected_otu Mapped_reads Mapping_percent_combined
1ng-30cycles-1 275152 300 301 275152 300 300 509447 250179 259268 37693 21809 15884 242096 265 277 242096 222 227 209033 242096 88264 2054 1642 6 180502 74.56
zero5ng-30cycles-1 359368 300 301 359368 300 300 665454 326768 338686 49132 28451 20681 316575 266 277 316575 223 227 274564 316575 110508 2636 2101 5 239869 75.77
1ng-25cycles-3 172137 300 301 172137 300 300 315854 154559 161295 26482 15642 10840 149233 265 277 149233 223 227 128265 149233 50807 1308 1206 2 120876 81.0
zero5ng-30cycles-2 242911 300 301 242911 300 300 449556 221480 228076 33397 18562 14835 213997 267 278 213997 222 227 186286 213997 72233 1822 1534 3 166269 77.7
1ng-30cycles-2 391843 300 301 391843 300 300 724875 357756 367119 53718 28996 24722 345232 267 277 345232 221 226 299176 345232 122988 2966 2480 4 265197 76.82
1ng-30cycles-3 256766 300 301 256766 300 300 453161 223254 229907 58344 31485 26859 206824 257 272 206824 208 205 154532 206824 89374 1953 1693 3 136259 65.88
zero5ng-25cycles-1 308283 300 301 308283 300 300 569407 277786 291621 43427 26767 16660 270219 265 277 270219 225 230 233528 270219 86199 2150 1997 2 221675 82.04
zero5ng-30cycles-3 132333 300 301 132333 300 300 183132 106023 77109 80943 25722 55221 65823 247 263 65823 174 177 29501 65823 23563 361 330 1 25045 38.05
1ng-25cycles-1 133794 300 301 133794 300 300 245147 120830 124317 20848 11371 9477 115918 265 277 115918 220 223 98970 115918 40840 1044 944 0 91507 78.94
zero5ng-25cycles-2 352123 300 301 352123 300 300 648535 318719 329816 50482 28176 22306 308459 267 277 308459 221 226 266924 308459 102877 2600 2357 3 250741 81.29
1ng-25cycles-2 225513 300 301 225513 300 300 410838 203514 207324 37100 18912 18188 193922 267 277 193922 218 217 165528 193922 70201 1737 1527 4 151784 78.27
zero5ng-25cycles-3 236495 300 301 236495 300 300 437038 212481 224557 33097 21161 11936 207488 265 277 207488 227 232 180797 207488 65025 1791 1690 4 172782 83.27
OTU_1 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 1.0 Lactobacillaceae family 1.0 Lactobacillus genus 1.0
OTU_2 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Staphylococcaceae family 1.0 Staphylococcus genus 1.0
OTU_3 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Listeriaceae family 1.0 Listeria genus 1.0
OTU_4 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Bacillaceae 1 family 1.0 Bacillus genus 1.0
OTU_5 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Salmonella genus 1.0
OTU_6 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Escherichia/Shigella genus 1.0
OTU_7 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 1.0 Enterococcaceae family 1.0 Enterococcus genus 1.0
OTU_8 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 Pseudomonadales order 1.0 Pseudomonadaceae family 1.0 Pseudomonas genus 1.0
OTU_9 - Root rootrank 1.0 Bacteria domain 0.97 Firmicutes phylum 0.18 Negativicutes class 0.05 Selenomonadales order 0.05 Veillonellaceae family 0.05 Thermosinus genus 0.01
OTU_10 - Root rootrank 1.0 Bacteria domain 0.9 Firmicutes phylum 0.23 Clostridia class 0.19 Halanaerobiales order 0.11 Halanaerobiaceae family 0.11 Halothermothrix genus 0.09
OTU_11 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Betaproteobacteria class 1.0 Burkholderiales order 1.0 Comamonadaceae family 1.0 Pelomonas genus 1.0
OTU_12 Root rootrank 1.0 Archaea domain 0.23 "Crenarchaeota" phylum 0.1 Thermoprotei class 0.1 Thermoproteales order 0.09 Thermoproteaceae family 0.09 Thermocladium genus 0.07
OTU_13 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Salmonella genus 0.58
OTU_14 Root rootrank 1.0 Bacteria domain 1.0 "Actinobacteria" phylum 1.0 Actinobacteria class 1.0 Actinobacteridae subclass 1.0 Actinomycetales order 1.0 Propionibacterineae suborder 1.0 Propionibacteriaceae family 1.0 Propionibacterium genus 1.0
OTU_15 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Escherichia/Shigella genus 1.0
OTU_16 - Root rootrank 1.0 Archaea domain 0.23 Pacearchaeota phylum 0.05 Pacearchaeota Incertae Sedis AR13 genus 0.05
OTU_17 - Root rootrank 1.0 Archaea domain 0.2 "Euryarchaeota" phylum 0.19 Thermoplasmata class 0.17 Methanomassiliicoccales order 0.17 Methanomassiliicoccaceae family 0.17 Methanomassiliicoccus genus 0.17
OTU_18 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Listeriaceae family 1.0 Listeria genus 1.0
OTU_19 Root rootrank 1.0 Bacteria domain 0.94 "Synergistetes" phylum 0.11 Synergistia class 0.11 Synergistales order 0.11 Synergistaceae family 0.11 Jonquetella genus 0.09
OTU_20 - Root rootrank 1.0 Bacteria domain 0.73 "Deinococcus-Thermus" phylum 0.03 Deinococci class 0.03 Thermales order 0.03 Thermaceae family 0.03 Marinithermus genus 0.03
OTU_21 Root rootrank 1.0 Bacteria domain 0.8 "Bacteroidetes" phylum 0.36 "Bacteroidia" class 0.11 "Bacteroidales" order 0.11 "Bacteroidales"_incertae_sedis family 0.09 Phocaeicola genus 0.09
OTU_22 Root rootrank 1.0 Bacteria domain 0.99 "Planctomycetes" phylum 0.21 Planctomycetia class 0.21 Planctomycetales order 0.17 Planctomycetaceae family 0.17 Aquisphaera genus 0.07
OTU_23 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 0.99 Bacilli class 0.99 Lactobacillales order 0.99 Lactobacillaceae family 0.98 Lactobacillus genus 0.96
OTU_24 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 0.99 Lactobacillales order 0.99 Lactobacillaceae family 0.97 Lactobacillus genus 0.97
OTU_25 Root rootrank 1.0 Bacteria domain 0.95 "Actinobacteria" phylum 0.14 Actinobacteria class 0.14 Coriobacteridae subclass 0.05 Coriobacteriales order 0.05 "Coriobacterineae" suborder 0.05 Coriobacteriaceae family 0.05 Adlercreutzia genus 0.03
OTU_26 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 Pseudomonadales order 1.0 Pseudomonadaceae family 1.0 Pseudomonas genus 0.74
OTU_27 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Bacillaceae 1 family 0.89 Bacillus genus 0.89
OTU_28 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.54 Bacillaceae 1 family 0.28 Bacillus genus 0.26
OTU_29 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.99 Bacillaceae 2 family 0.81 Allobacillus genus 0.63
OTU_30 Root rootrank 1.0 Bacteria domain 1.0 "Bacteroidetes" phylum 1.0 "Bacteroidia" class 1.0 "Bacteroidales" order 1.0 "Porphyromonadaceae" family 0.98 Barnesiella genus 0.33
OTU_31 Root rootrank 1.0 Archaea domain 0.31 "Euryarchaeota" phylum 0.19 Methanopyri class 0.06 Methanopyrales order 0.06 Methanopyraceae family 0.06 Methanopyrus genus 0.06
OTU_32 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Alphaproteobacteria class 1.0 Sphingomonadales order 1.0 Sphingomonadaceae family 1.0 Sphingomonas genus 1.0
OTU_33 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Salmonella genus 0.57
OTU_34 Root rootrank 1.0 Bacteria domain 0.71 "Deinococcus-Thermus" phylum 0.08 Deinococci class 0.08 Thermales order 0.07 Thermaceae family 0.07 Vulcanithermus genus 0.05
OTU_35 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 0.98 Enterococcaceae family 0.56 Enterococcus genus 0.31
OTU_36 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.96 Deltaproteobacteria class 0.95 Bdellovibrionales order 0.95 Bdellovibrionaceae family 0.95 Vampirovibrio genus 0.95
OTU_37 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.87 Listeriaceae family 0.87 Listeria genus 0.87
{"id":null,"format":"Biological Observation Matrix 1.0.0-dev","format_url":"http://biom-format.org/documentation/format_versions/biom-1.0.html","type":"OTU table","generated_by":"biomformatshaman 0.99.4","date":"2019-10-10 15:10:12","matrix_type":"dense","matrix_element_type":"int","shape":[37,12],"rows":[{"id":"OTU_1","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Lactobacillales","taxonomy5":"f__Lactobacillaceae","taxonomy6":"g__Lactobacillus","taxonomy7":"s__Lactobacillus sp. 2011_Ileo_VSA_C5"}},{"id":"OTU_10","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_11","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Betaproteobacteriales","taxonomy5":"f__Burkholderiaceae","taxonomy6":"g__Pelomonas","taxonomy7":"s__uncultured Comamonadaceae bacterium"}},{"id":"OTU_12","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_13","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Enterobacteriales","taxonomy5":"f__Enterobacteriaceae","taxonomy6":"g__Salmonella","taxonomy7":"s__"}},{"id":"OTU_14","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Actinobacteria","taxonomy3":"c__Actinobacteria","taxonomy4":"o__Propionibacteriales","taxonomy5":"f__Propionibacteriaceae","taxonomy6":"g__Cutibacterium","taxonomy7":"s__Cutibacterium acnes"}},{"id":"OTU_15","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Enterobacteriales","taxonomy5":"f__Enterobacteriaceae","taxonomy6":"g__Escherichia-Shigella","taxonomy7":"s__"}},{"id":"OTU_16","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_17","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_18","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Listeriaceae","taxonomy6":"g__Listeria","taxonomy7":"s__"}},{"id":"OTU_19","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_2","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Staphylococcaceae","taxonomy6":"g__Staphylococcus","taxonomy7":"s__"}},{"id":"OTU_20","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_21","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_22","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_23","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Lactobacillales","taxonomy5":"f__Lactobacillaceae","taxonomy6":"g__Lactobacillus","taxonomy7":"s__"}},{"id":"OTU_24","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Lactobacillales","taxonomy5":"f__Lactobacillaceae","taxonomy6":"g__Lactobacillus","taxonomy7":"s__"}},{"id":"OTU_25","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_26","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Pseudomonadales","taxonomy5":"f__Pseudomonadaceae","taxonomy6":"g__Pseudomonas","taxonomy7":"s__"}},{"id":"OTU_27","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Bacillaceae","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_28","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Bacillaceae","taxonomy6":"g__Bacillus","taxonomy7":"s__"}},{"id":"OTU_29","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Bacillaceae","taxonomy6":"g__Bacillus","taxonomy7":"s__"}},{"id":"OTU_3","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Listeriaceae","taxonomy6":"g__Listeria","taxonomy7":"s__Listeria monocytogenes"}},{"id":"OTU_30","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Bacteroidetes","taxonomy3":"c__Bacteroidia","taxonomy4":"o__Bacteroidales","taxonomy5":"f__Muribaculaceae","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_31","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_32","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Alphaproteobacteria","taxonomy4":"o__Sphingomonadales","taxonomy5":"f__Sphingomonadaceae","taxonomy6":"g__Sphingomonas","taxonomy7":"s__Sphingomonas sp."}},{"id":"OTU_33","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Enterobacteriales","taxonomy5":"f__Enterobacteriaceae","taxonomy6":"g__Salmonella","taxonomy7":"s__"}},{"id":"OTU_34","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_35","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Lactobacillales","taxonomy5":"f__Enterococcaceae","taxonomy6":"g__Enterococcus","taxonomy7":"s__"}},{"id":"OTU_36","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Cyanobacteria","taxonomy3":"c__Melainabacteria","taxonomy4":"o__Obscuribacterales","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}},{"id":"OTU_37","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Listeriaceae","taxonomy6":"g__Listeria","taxonomy7":"s__"}},{"id":"OTU_4","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Bacillales","taxonomy5":"f__Bacillaceae","taxonomy6":"g__Bacillus","taxonomy7":"s__"}},{"id":"OTU_5","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Enterobacteriales","taxonomy5":"f__Enterobacteriaceae","taxonomy6":"g__Salmonella","taxonomy7":"s__Salmonella enterica subsp. enterica serovar Agona str. 47.E.09"}},{"id":"OTU_6","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Enterobacteriales","taxonomy5":"f__Enterobacteriaceae","taxonomy6":"g__Escherichia-Shigella","taxonomy7":"s__Escherichia coli"}},{"id":"OTU_7","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Firmicutes","taxonomy3":"c__Bacilli","taxonomy4":"o__Lactobacillales","taxonomy5":"f__Enterococcaceae","taxonomy6":"g__Enterococcus","taxonomy7":"s__Enterococcus faecalis"}},{"id":"OTU_8","metadata":{"taxonomy1":"k__Bacteria","taxonomy2":"p__Proteobacteria","taxonomy3":"c__Gammaproteobacteria","taxonomy4":"o__Pseudomonadales","taxonomy5":"f__Pseudomonadaceae","taxonomy6":"g__Pseudomonas","taxonomy7":"s__Pseudomonas sp."}},{"id":"OTU_9","metadata":{"taxonomy1":"k__","taxonomy2":"p__","taxonomy3":"c__","taxonomy4":"o__","taxonomy5":"f__","taxonomy6":"g__","taxonomy7":"s__"}}],"columns":[{"id":"1ng.25cycles.1","metadata":{"StartDNA":"1ng","CyclePCR":"25cycles"}},{"id":"1ng.25cycles.2","metadata":{"StartDNA":"1ng","CyclePCR":"25cycles"}},{"id":"1ng.25cycles.3","metadata":{"StartDNA":"1ng","CyclePCR":"25cycles"}},{"id":"1ng.30cycles.1","metadata":{"StartDNA":"1ng","CyclePCR":"30cycles"}},{"id":"1ng.30cycles.2","metadata":{"StartDNA":"1ng","CyclePCR":"30cycles"}},{"id":"1ng.30cycles.3","metadata":{"StartDNA":"1ng","CyclePCR":"30cycles"}},{"id":"zero5ng.25cycles.1","metadata":{"StartDNA":"05ng","CyclePCR":"25cycles"}},{"id":"zero5ng.25cycles.2","metadata":{"StartDNA":"05ng","CyclePCR":"25cycles"}},{"id":"zero5ng.25cycles.3","metadata":{"StartDNA":"05ng","CyclePCR":"25cycles"}},{"id":"zero5ng.30cycles.1","metadata":{"StartDNA":"05ng","CyclePCR":"30cycles"}},{"id":"zero5ng.30cycles.2","metadata":{"StartDNA":"05ng","CyclePCR":"30cycles"}},{"id":"zero5ng.30cycles.3","metadata":{"StartDNA":"05ng","CyclePCR":"30cycles"}}],"data":[[17452,27132,22629,34080,44292,26501,37086,38991,27500,43561,25487,6835],[7,5,17,39,8,6,17,0,22,58,17,3],[0,6,3,8,9,8,12,18,5,13,6,0],[2,1,3,28,1,2,5,1,9,10,13,3],[19,39,33,76,115,37,42,62,24,76,47,5],[1,4,3,10,4,2,14,6,1,15,5,3],[11,29,14,55,74,41,18,43,19,52,52,4],[3,1,0,14,4,0,1,0,1,8,5,2],[0,2,0,4,4,0,1,0,2,9,5,0],[23,62,30,79,149,57,51,67,34,63,90,10],[0,0,0,0,5,1,0,1,1,7,0,0],[15876,23669,22093,29730,43593,24110,38547,42863,30778,39804,28689,4778],[0,0,0,3,0,2,3,0,0,2,2,0],[5,0,0,4,4,0,0,0,1,5,0,0],[0,0,0,2,0,1,1,0,0,1,2,0],[111,221,114,414,591,245,186,311,109,506,319,61],[10,17,12,35,56,32,13,32,6,53,21,7],[2,3,0,2,0,2,0,0,2,2,0,0],[13,23,11,54,78,31,22,33,17,61,37,5],[1,3,2,4,7,1,1,3,1,2,4,0],[32,72,42,162,252,72,45,70,49,194,125,4],[2,4,1,16,15,8,4,1,0,20,15,3],[13151,22170,17543,23653,36990,19779,32699,39009,27168,30811,23093,3795],[0,0,0,1,0,0,1,2,3,0,10,0],[0,0,5,2,0,0,2,0,0,3,0,0],[0,0,2,0,0,0,6,1,1,5,2,0],[3,13,8,29,30,12,9,32,11,25,22,0],[0,0,0,0,0,0,0,0,7,0,0,0],[37,57,24,104,109,56,42,51,21,151,86,3],[0,0,0,0,1,0,0,0,0,4,2,0],[17,44,12,101,137,71,46,51,32,122,72,17],[13341,23379,16062,28818,41802,20963,39069,38352,25868,39205,26624,2795],[11534,20049,16044,23534,35798,15248,27516,33632,24154,31495,22770,1540],[8183,13707,10964,16276,24625,12822,18929,23174,15187,21971,15719,2336],[6576,12025,8160,12256,19570,9422,15132,18330,11771,15540,11897,2182],[5082,9047,7033,10887,16871,6722,12133,15601,9962,15972,11023,651],[13,0,12,22,3,5,22,4,16,43,8,3]]}
\ No newline at end of file
OTU Kingdom Phylum Class Order Family Genus Specie
OTU_25 Bacteria Firmicutes
OTU_59 Bacteria Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas sp.
OTU_40 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria
OTU_9 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae
OTU_62 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia-Shigella
OTU_60 Bacteria Firmicutes Clostridia Clostridiales Ruminococcaceae Fastidiosipila
OTU_2 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_13 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella
OTU_32 Bacteria Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas sp.
OTU_5 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella Salmonella enterica subsp. enterica serovar Agona str. 47.E.09
OTU_45 Bacteria Cyanobacteria Melainabacteria Obscuribacterales
OTU_44 Bacteria Bacteroidetes Bacteroidia Bacteroidales Muribaculaceae
OTU_19 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia-Shigella
OTU_20 Bacteria Proteobacteria Gammaproteobacteria Betaproteobacteriales Burkholderiaceae Pelomonas uncultured Comamonadaceae bacterium
OTU_36 Bacteria Cyanobacteria Melainabacteria Obscuribacterales
OTU_30 Bacteria Bacteroidetes Bacteroidia Bacteroidales Muribaculaceae
OTU_2 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_15 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia-Shigella
OTU_3 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria Listeria monocytogenes
OTU_47 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria
OTU_14 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae
OTU_70 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_18 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella
OTU_28 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_26 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas
OTU_4 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_65 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Sneathia
OTU_8 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas
OTU_67 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_33 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Salmonella
OTU_6 Bacteria Proteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia-Shigella Escherichia coli
OTU_66 Bacteria Firmicutes Bacilli Lactobacillales Carnobacteriaceae Granulicatella
OTU_11 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae
OTU_28 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_49 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_15 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria
OTU_24 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_37 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria
OTU_11 Bacteria Proteobacteria Gammaproteobacteria Betaproteobacteriales Burkholderiaceae Pelomonas uncultured Comamonadaceae bacterium
OTU_1 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus sp. 2011_Ileo_VSA_C5
OTU_26 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas
OTU_41 Eukaryota Fungi Tremellomycetes Tremellales Cryptococcaceae Cryptococcus Cryptococcus neoformans var. neoformans B-3501A
OTU_69 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_12 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae
OTU_55 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae
OTU_61 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_7 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus faecalis
OTU_24 Bacteria Actinobacteria Actinobacteria Propionibacteriales Propionibacteriaceae Cutibacterium Cutibacterium acnes
OTU_46 Bacteria Firmicutes Bacilli Bacillales Bacillaceae
OTU_53 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_52 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_38 Bacteria Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
OTU_43 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_42 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
OTU_14 Bacteria Actinobacteria Actinobacteria Propionibacteriales Propionibacteriaceae Cutibacterium Cutibacterium acnes
OTU_27 Bacteria Firmicutes Bacilli Bacillales Bacillaceae
OTU_8 Bacteria Proteobacteria Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas sp.
OTU_18 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria
OTU_35 Bacteria Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
OTU_29 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Bacillus
OTU_23 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
(((OTU_37:0.052809311,(OTU_3:0.000000007,OTU_18:0.041027602)0.896:0.015864195)0.943:0.023417041,(OTU_28:0.004094553,((OTU_23:0.026369253,(OTU_1:0.000000007,OTU_24:0.047435799)0.929:0.017506033)0.992:0.083374588,(OTU_36:0.228710150,((OTU_32:0.158848804,(((OTU_8:0.001439017,OTU_26:0.039716104)1.000:0.124740256,((OTU_5:0.000000007,(OTU_13:0.023499909,OTU_33:0.018440412)0.990:0.024326115)0.973:0.061547973,(OTU_6:0.000000007,OTU_15:0.047397834)0.734:0.016643858)0.996:0.106571159)0.913:0.055655170,OTU_11:0.135232532)0.750:0.049878315)0.974:0.092398407,(OTU_30:0.412951251,OTU_14:0.223454379)0.568:0.034071695)0.483:0.037651812)1.000:0.190151579)0.130:0.028898052)0.992:0.041319696)0.534:0.016221638,(OTU_7:0.005396663,OTU_35:0.038531341)0.985:0.042658209,((OTU_29:0.042498382,(OTU_4:0.000000007,OTU_27:0.009729624)0.831:0.011000250)0.985:0.041747819,OTU_2:0.088099128)0.795:0.019204656);
{"type": "16S", "path_R2": "/tmp/Rtmp6ySBtN/Masque_files_R2", "phredthres": 0, "annotationstrand": "both", "aFmax": 0.945, "aPmin": 0.75, "aSmin": 0.98, "aKmin": 0.75, "minreadlength": 50, "mail": "amine.ghozlane@pasteur.fr", "clusteringthreshold": 0.97, "aOmax": 0.865, "contaminant": "/tmp/Rtmp6ySBtN/filea1a9748bebd0_contaminant.fasta", "name": "filea1a9748bebd0", "pattern_R1": "_L001_R1_001", "clusteringstrand": "both", "aCmin": 0.785, "minampliconlength": 50, "aPmax": 0.785, "dreptype": "--derep_prefix", "maxampliconlength": 0, "data_history_name": "data_shaman_2186_106", "minoverlap": 10, "aOmin": 0.82, "aGmin": 0.945, "path_R1": "/tmp/Rtmp6ySBtN/Masque_files_R1", "aFmin": 0.865, "paired": true, "result_history_name": "shaman_2186_106", "mincorrect": 50, "minabundance": 4, "host": "", "aGmax": 0.98, "aCmax": 0.82}
\ No newline at end of file
(OTU_43:0.042884653,(OTU_4:0.000000007,OTU_46:0.009390584)0.912:0.017870958,(OTU_49:0.020821676,(OTU_47:0.022300505,((((OTU_66:0.000000007,(OTU_61:0.045356270,((OTU_69:0.000000007,OTU_60:0.039062501)0.731:0.000000007,(OTU_2:0.000000007,OTU_38:0.030038757)0.860:0.000000006)0.799:0.010322779)0.999:0.054793408)0.995:0.037939994,((OTU_40:0.036746419,(OTU_3:0.000000006,OTU_15:0.048600555)0.730:0.002422572)0.992:0.052006245,(((OTU_28:0.000000006,((((OTU_8:0.000000007,OTU_26:0.039668158)0.992:0.058171794,(((OTU_44:0.431891816,OTU_20:0.087273420)0.842:0.074934215,((OTU_45:0.225427475,OTU_24:0.213406872)0.972:0.107393644,(OTU_65:0.323090252,OTU_59:0.128938744)0.903:0.053503914)0.469:0.044803896)0.256:0.046064093,((OTU_5:0.000000007,OTU_18:0.046264531)0.974:0.058184509,(OTU_6:0.000000007,OTU_19:0.045890322)0.797:0.017831029)0.997:0.101410042)0.969:0.067883746)0.990:0.062039729,(OTU_14:0.000000007,(((OTU_62:0.001400378,(OTU_9:0.000000007,OTU_25:0.000000007)0.949:0.068063487)0.903:0.054124751,OTU_55:0.002770174)0.830:0.013064319,OTU_12:0.041163336)1.000:0.083967902)0.963:0.043561117)1.000:0.085639968,OTU_11:0.000000007)1.000:0.127315011)0.999:0.046124874,(OTU_1:0.000000007,OTU_42:0.042015878)0.765:0.000000006)0.971:0.037307077,OTU_70:0.015826282)1.000:0.099109147)0.308:0.013182076)0.921:0.019086489,(OTU_7:0.000000006,(OTU_52:0.018102916,OTU_53:0.020976946)0.985:0.024227705)0.903:0.015356962)0.924:0.026938270,OTU_67:0.000000006)0.993:0.029424143)0.900:0.011283368)0.872:0.013708432);
#OTU ID 1ng-25cycles-1_S38 1ng-25cycles-2_S39 1ng-25cycles-3_S40 1ng-30cycles-1_S50 1ng-30cycles-2_S51 1ng-30cycles-3_S52 20ng-20cycles-1_S14 20ng-20cycles-2_S15 20ng-20cycles-3_S16 20ng-25cycles-1_S2 20ng-25cycles-2_S3 20ng-25cycles-3_S4 5ng-25cycles-1_S26 5ng-25cycles-2_S27 5ng-25cycles-3_S28 zero5ng-25cycles-1_S62 zero5ng-25cycles-2_S63 zero5ng-25cycles-3_S64 zero5ng-30cycles-1_S74 zero5ng-30cycles-2_S75 zero5ng-30cycles-3_S76
OTU_1 20360 31734 26239 39341 51068 34607 43387 51788 45285 45424 38082 46877 29728 34067 36653 43241 45307 31809 49944 29197 12686
OTU_10 15 0 12 23 4 6 20 20 12 25 1 12 40 0 25 23 4 16 50 8 5
OTU_11 31 41 19 107 104 55 46 44 33 107 137 82 43 63 44 18 27 20 138 61 18
OTU_12 81 146 101 305 409 193 177 233 141 336 403 350 167 239 182 128 186 92 378 243 54
OTU_13 8 5 18 40 8 6 30 27 20 33 1 22 50 6 54 18 0 24 62 19 4
OTU_14 33 81 36 181 210 103 57 103 59 183 211 175 106 123 112 61 93 26 248 189 24
OTU_15 24 77 27 101 174 79 39 76 57 100 133 103 66 49 50 52 77 35 71 102 19
OTU_16 3 1 3 32 1 2 14 11 1 11 8 9 16 7 21 6 1 9 10 13 4
OTU_17 0 2 0 4 4 0 6 3 2 5 3 1 1 2 6 1 0 2 9 5 0
OTU_18 24 47 39 86 129 54 35 80 60 82 121 96 38 88 85 53 71 28 85 57 8
OTU_19 12 37 15 60 83 53 41 54 22 63 91 77 55 70 49 20 49 22 66 59 7
OTU_2 18676 27903 26126 34853 50574 32174 42742 55406 45490 37495 29397 35607 30330 40305 37747 45089 50059 35897 46262 33097 9973
OTU_20 0 7 4 10 11 10 0 0 0 0 0 0 0 3 0 14 20 5 16 6 0
OTU_21 3 1 1 20 5 2 4 6 11 2 8 10 8 8 4 2 3 2 13 6 3
OTU_22 0 0 0 0 5 1 1 0 2 1 0 5 5 0 0 0 1 1 8 0 1
OTU_23 5 0 0 4 5 0 0 2 2 4 0 7 5 1 1 0 0 2 5 0 0
OTU_24 2 4 4 13 5 4 0 0 1 0 1 0 0 2 2 18 6 2 16 8 4
OTU_25 2 1 1 3 6 1 0 2 1 3 6 6 0 2 7 0 0 0 5 3 0
OTU_26 26 61 23 103 136 69 30 85 72 114 104 102 50 89 98 43 63 37 120 67 14
OTU_27 0 0 5 2 0 0 0 2 2 1 0 2 0 0 0 2 0 0 3 0 0
OTU_28 12 18 13 39 60 38 15 25 22 61 41 54 22 41 16 13 33 6 63 21 9
OTU_29 0 0 0 3 0 2 0 3 9 2 0 0 4 0 1 4 0 0 2 3 0
OTU_3 15314 25794 20477 27080 42310 25483 35798 49896 38160 29170 26927 30129 24028 32206 32946 37830 44979 31431 35228 26258 7556
OTU_30 0 2 0 2 0 0 0 0 0 2 0 3 0 0 1 0 0 0 6 0 0
OTU_31 2 0 1 1 0 0 0 3 1 1 2 0 0 5 2 0 0 2 0 0 0
OTU_32 0 0 0 0 3 0 5 1 0 2 0 2 0 0 0 2 0 0 2 0 0
OTU_33 2 1 0 0 0 1 5 1 2 7 0 1 2 5 0 1 2 2 8 6 1
OTU_34 2 3 0 2 0 2 1 2 0 1 0 1 0 0 0 0 0 2 2 0 0
OTU_35 0 0 1 2 0 0 3 3 3 1 2 1 5 2 0 1 0 0 6 3 0
OTU_36 1 0 0 3 0 0 0 0 2 0 0 2 1 1 2 1 4 2 2 5 0
OTU_37 0 0 0 3 0 1 0 0 0 0 0 2 0 2 0 1 0 0 1 2 0
OTU_38 18 49 21 76 100 69 42 57 37 92 102 72 55 87 75 33 69 20 91 65 16
OTU_39 0 3 0 0 0 0 0 0 0 0 4 1 0 0 1 2 0 0 4 0 0
OTU_4 16885 29352 20248 35722 51543 31124 43834 49443 39468 39295 32315 31447 31638 39818 43126 48856 47605 32203 48057 32531 7283
OTU_40 34 71 39 152 211 70 92 144 72 129 144 113 90 124 126 80 109 60 197 91 28
OTU_41 1 0 0 1 0 1 0 2 0 1 0 0 0 0 1 2 0 0 0 0 0
OTU_42 122 234 132 459 646 276 214 352 261 426 501 439 250 410 337 201 335 118 554 346 88
OTU_43 3 8 2 24 21 15 3 9 6 48 33 20 15 6 13 6 3 0 28 19 7
OTU_44 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 2 3 4 0 12 0
OTU_45 0 0 0 0 1 0 0 0 0 0 0 0 3 3 0 0 0 0 5 3 0
OTU_46 1 2 2 4 7 1 5 0 0 0 6 0 0 1 7 1 4 1 2 4 0
OTU_47 251 434 240 910 1133 514 426 752 465 976 922 818 459 718 581 386 562 280 1158 758 51
OTU_48 1 0 0 0 0 0 2 2 0 0 0 0 0 0 0 3 0 0 0 0 0
OTU_49 286 510 294 1191 1456 598 540 800 498 1240 1044 1044 597 1024 748 435 610 315 1447 815 77
OTU_5 14126 24363 19543 28630 43085 22741 32492 43287 35159 32594 29854 35222 24098 33055 33176 33168 40478 29085 38149 27187 3814
OTU_50 0 0 0 0 0 0 0 0 0 5 0 0 0 0 1 1 0 0 0 0 0
OTU_51 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 0 0 0 3 0 0
OTU_52 38 59 28 107 107 54 71 89 47 98 95 118 61 88 70 40 51 20 151 92 7
OTU_53 79 157 90 345 430 135 164 269 147 350 316 307 175 259 193 112 211 95 435 250 21
OTU_54 0 0 0 2 0 0 0 0 0 0 0 2 3 0 1 0 0 1 1 0 0
OTU_55 43 93 43 179 237 168 107 140 120 241 250 230 129 169 142 88 152 47 231 165 24
OTU_56 0 0 2 0 0 1 0 0 0 1 0 2 0 0 0 0 0 0 0 0 0
OTU_57 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 3 0 0 0 0 1
OTU_58 0 0 0 0 2 0 0 0 0 4 0 2 0 0 0 1 0 0 0 2 0
OTU_59 0 0 3 1 0 0 0 0 0 0 0 0 0 0 0 6 1 2 6 2 1
OTU_6 10221 17184 13612 20142 30222 18339 22934 29582 23374 22158 21126 24194 16763 22817 21790 23266 28458 18470 26889 19066 5882
OTU_60 52 69 40 147 235 118 81 135 97 152 160 189 109 146 88 54 98 44 191 136 50
OTU_61 5 10 0 24 19 13 7 6 3 20 22 15 6 14 15 2 6 0 38 13 6
OTU_62 23 94 38 137 188 107 58 89 80 189 143 141 83 130 97 61 75 34 149 123 20
OTU_63 0 0 0 0 0 0 0 1 0 2 0 0 1 0 1 0 0 2 0 0 0
OTU_64 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0
OTU_65 0 0 2 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0
OTU_66 104 191 79 439 444 250 168 311 180 365 390 277 203 285 269 139 249 72 427 262 80
OTU_67 128 216 117 407 543 262 223 311 203 420 398 352 209 278 343 194 282 118 471 296 71
OTU_68 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
OTU_69 3 2 1 10 9 9 9 9 3 10 8 9 2 10 2 5 9 3 15 7 8
OTU_7 7592 13857 9387 13681 22111 12021 16756 22535 17609 15537 14537 15067 10473 14958 15970 17494 21041 13521 17356 13458 4075
OTU_70 4 4 3 43 32 16 1 10 1 37 24 20 3 16 8 5 1 1 30 18 2
OTU_8 6475 11438 8766 13541 20838 9719 15078 22324 17257 14658 14653 16586 11792 16048 16112 14737 19042 11961 19486 13319 1717
OTU_9 71 128 63 222 340 161 129 167 103 274 275 208 130 238 183 120 143 68 318 224 39
Type Count Mean_length Median_length
Amplicon 5667037 429 427
Dereplication 2807991 429 427
Singleton_removed 41960 430 427
Chimera_removed 35606 430 427
OTU 70 353 424
silva_annotation 42
greengenes_annotation 41
rdp_annotation 69
sample Raw_reads_fwd Raw_mean_length_fwd Raw_median_length_fwd Raw_reads_rev Raw_mean_length_rev Raw_median_length_rev Trimmed Trimmed_fwd Trimmed_rev Removed Removed_fwd Removed_rev Filtered_reads_fwd Filtered_mean_length_fwd Filtered_median_length_fwd Filtered_reads_rev Filtered_mean_length_rev Filtered_median_length_rev Combined pairs Uncombined pairs Selected_dereplication Selected_singleton Selected_chimera Selected_otu Mapped_reads Mapping_percent_combined
5ng-25cycles-2_S27 284620 300 301 284620 300 300 535653 251625 284028 14 7 7 284613 285 284 284613 279 279 282525 284613 131359 2125 1756 4 238088 83.65
20ng-20cycles-1_S14 297586 300 301 297586 300 300 561759 264767 296992 4 2 2 297584 285 284 297584 279 279 295212 297584 134679 2100 1886 4 255895 85.99
20ng-25cycles-3_S4 296908 300 301 296908 300 300 564512 268252 296260 8 4 4 296904 285 284 296904 279 279 294155 296904 141106 2246 1812 5 240633 81.05
5ng-25cycles-1_S26 216807 300 301 216807 300 300 410968 194591 216377 6 3 3 216804 285 284 216804 279 279 215222 216804 98761 1547 1296 6 182120 84.0
20ng-25cycles-1_S2 302678 300 301 302678 300 300 577044 274979 302065 13 7 6 302671 285 284 302671 279 279 299987 302671 148426 2291 1814 3 242561 80.14
zero5ng-25cycles-2_S63 352123 300 301 352123 300 300 659554 308094 351460 4 2 2 352121 286 284 352121 279 279 348756 352121 165806 2592 2317 2 300582 85.36
zero5ng-25cycles-1_S62 308283 300 301 308283 300 300 581421 273749 307672 6 3 3 308280 285 284 308280 279 279 305526 308280 140665 2110 1940 2 266145 86.33
1ng-25cycles-2_S39 225513 300 301 225513 300 300 422683 197695 224988 4 2 2 225511 286 284 225511 279 279 222725 225511 116008 1826 1583 3 184494 81.81
1ng-30cycles-1_S50 275152 300 301 275152 300 300 520299 245752 274547 34 17 17 275134 285 284 275134 279 279 272693 275134 136424 2068 1587 8 219023 79.61
20ng-25cycles-2_S3 269896 300 301 269896 300 300 510908 241591 269317 8 4 4 269892 285 284 269892 279 279 267249 269892 135359 2156 1676 2 213001 78.92
1ng-25cycles-1_S38 133794 300 301 133794 300 300 252331 118843 133488 4 2 2 133792 285 284 133792 279 279 132305 133792 66824 1033 915 2 111204 83.12
zero5ng-25cycles-3_S64 236495 300 301 236495 300 300 445831 209795 236036 5 3 2 236492 285 284 236492 279 279 234247 236492 104951 1692 1581 3 206026 87.12
20ng-20cycles-2_S15 386487 300 301 386487 300 300 727489 341766 385723 10 5 5 386482 285 284 386482 279 279 383237 386482 179798 2840 2514 2 328702 85.05
zero5ng-30cycles-3_S76 132333 300 301 132333 300 300 244174 114554 129620 2 1 1 132332 286 284 132332 280 279 118610 132332 110832 428 383 0 53758 40.62
1ng-25cycles-3_S40 172137 300 301 172137 300 300 324738 152947 171791 2 1 1 172136 285 284 172136 279 279 170386 172136 83061 1292 1175 4 145965 84.8
zero5ng-30cycles-2_S75 242911 300 301 242911 300 300 461139 218777 242362 14 7 7 242904 285 284 242904 279 279 240422 242904 113875 1744 1430 4 198702 81.8
zero5ng-30cycles-1_S74 359368 300 301 359368 300 300 682671 324017 358654 45 23 22 359345 285 284 359345 279 279 355985 359345 172641 2623 2030 5 288718 80.35
20ng-20cycles-3_S16 306702 300 301 306702 300 300 578443 272408 306035 6 3 3 306699 285 284 306699 279 279 303921 306699 135634 2066 1881 1 264662 86.29
1ng-30cycles-2_S51 391843 300 301 391843 300 300 739590 348609 390981 10 5 5 391838 285 284 391838 279 279 388256 391838 191024 3020 2504 4 319274 81.48
5ng-25cycles-3_S28 285903 300 301 285903 300 300 540819 255475 285344 4 2 2 285901 285 284 285901 279 279 283559 285901 127824 1980 1635 4 241584 84.5
1ng-30cycles-3_S52 256766 300 301 256766 300 300 481510 225448 256062 6 3 3 256763 286 284 256763 279 279 252059 256763 172934 2181 1891 2 189728 73.89
OTU_1 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 1.0 Lactobacillaceae family 1.0 Lactobacillus genus 1.0
OTU_2 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Staphylococcaceae family 1.0 Staphylococcus genus 1.0
OTU_3 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Listeriaceae family 1.0 Listeria genus 1.0
OTU_4 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Bacillaceae 1 family 0.99 Bacillus genus 0.99
OTU_5 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Salmonella genus 1.0
OTU_6 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Escherichia/Shigella genus 1.0
OTU_7 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 1.0 Enterococcaceae family 1.0 Enterococcus genus 1.0
OTU_8 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 Pseudomonadales order 1.0 Pseudomonadaceae family 1.0 Pseudomonas genus 1.0
OTU_9 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.76 Gammaproteobacteria class 0.76 "Enterobacteriales" order 0.74 Enterobacteriaceae family 0.74 Leclercia genus 0.54
OTU_10 - Root rootrank 1.0 Bacteria domain 0.97 Firmicutes phylum 0.17 Negativicutes class 0.06 Selenomonadales order 0.06 Veillonellaceae family 0.06 Thermosinus genus 0.04
OTU_11 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.64 Gammaproteobacteria class 0.64 Pseudomonadales order 0.61 Pseudomonadaceae family 0.61 Thiopseudomonas genus 0.3
OTU_12 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.66 Gammaproteobacteria class 0.66 "Enterobacteriales" order 0.64 Enterobacteriaceae family 0.64 Leclercia genus 0.45
OTU_13 - Root rootrank 1.0 Bacteria domain 0.94 Firmicutes phylum 0.21 Clostridia class 0.15 Halanaerobiales order 0.09 Halanaerobiaceae family 0.09 Halothermothrix genus 0.09
OTU_14 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.5 Gammaproteobacteria class 0.5 Pseudomonadales order 0.49 Pseudomonadaceae family 0.49 Thiopseudomonas genus 0.23
OTU_15 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Listeriaceae family 1.0 Listeria genus 1.0
OTU_16 Root rootrank 1.0 Archaea domain 0.27 "Crenarchaeota" phylum 0.2 Thermoprotei class 0.2 Thermoproteales order 0.19 Thermoproteaceae family 0.19 Thermocladium genus 0.18
OTU_17 - Root rootrank 1.0 Archaea domain 0.21 "Euryarchaeota" phylum 0.2 Thermoplasmata class 0.18 Methanomassiliicoccales order 0.18 Methanomassiliicoccaceae family 0.18 Methanomassiliicoccus genus 0.18
OTU_18 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Salmonella genus 0.58
OTU_19 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 "Enterobacteriales" order 1.0 Enterobacteriaceae family 1.0 Escherichia/Shigella genus 1.0
OTU_20 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Betaproteobacteria class 1.0 Burkholderiales order 1.0 Comamonadaceae family 1.0 Pelomonas genus 1.0
OTU_21 - Root rootrank 1.0 Archaea domain 0.23 Pacearchaeota phylum 0.05 Pacearchaeota Incertae Sedis AR13 genus 0.05
OTU_22 Root rootrank 1.0 Bacteria domain 0.92 "Synergistetes" phylum 0.11 Synergistia class 0.11 Synergistales order 0.11 Synergistaceae family 0.11 Jonquetella genus 0.09
OTU_23 Root rootrank 1.0 Bacteria domain 0.82 "Bacteroidetes" phylum 0.42 "Bacteroidia" class 0.14 "Bacteroidales" order 0.14 "Bacteroidales"_incertae_sedis family 0.1 Phocaeicola genus 0.1
OTU_24 Root rootrank 1.0 Bacteria domain 1.0 "Actinobacteria" phylum 1.0 Actinobacteria class 1.0 Actinobacteridae subclass 1.0 Actinomycetales order 1.0 Propionibacterineae suborder 1.0 Propionibacteriaceae family 1.0 Propionibacterium genus 1.0
OTU_25 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 0.73 Bacilli class 0.71 Bacillales order 0.68 Bacillaceae 2 family 0.62 Allobacillus genus 0.22
OTU_26 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Gammaproteobacteria class 1.0 Pseudomonadales order 1.0 Pseudomonadaceae family 1.0 Pseudomonas genus 0.68
OTU_27 Root rootrank 1.0 Archaea domain 0.35 "Euryarchaeota" phylum 0.13 Methanopyri class 0.03 Methanopyrales order 0.03 Methanopyraceae family 0.03 Methanopyrus genus 0.03
OTU_28 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 0.99 Lactobacillales order 0.99 Lactobacillaceae family 0.97 Lactobacillus genus 0.97
OTU_29 - Root rootrank 1.0 Bacteria domain 0.81 "Deinococcus-Thermus" phylum 0.07 Deinococci class 0.07 Thermales order 0.06 Thermaceae family 0.06 Marinithermus genus 0.06
OTU_30 Root rootrank 1.0 Bacteria domain 0.92 "Lentisphaerae" phylum 0.04 Oligosphaeria class 0.04 Oligosphaerales order 0.04 Oligosphaeraceae family 0.04 Oligosphaera genus 0.04
OTU_31 Root rootrank 1.0 Bacteria domain 0.75 "Proteobacteria" phylum 0.34 Gammaproteobacteria class 0.28 Gammaproteobacteria_incertae_sedis order 0.19 Candidatus Carsonella genus 0.19
OTU_32 Root rootrank 1.0 Bacteria domain 0.91 "Deinococcus-Thermus" phylum 0.04 Deinococci class 0.04 Thermales order 0.04 Thermaceae family 0.04 Marinithermus genus 0.04
OTU_33 Root rootrank 1.0 Bacteria domain 0.88 "Proteobacteria" phylum 0.32 Deltaproteobacteria class 0.09 Myxococcales order 0.07 Cystobacterineae suborder 0.05 Myxococcaceae family 0.01 Pyxidicoccus genus 0.0
OTU_34 Root rootrank 1.0 Bacteria domain 0.93 "Actinobacteria" phylum 0.09 Actinobacteria class 0.08 Coriobacteridae subclass 0.04 Coriobacteriales order 0.04 "Coriobacterineae" suborder 0.04 Coriobacteriaceae family 0.04 Adlercreutzia genus 0.03
OTU_35 Root rootrank 1.0 Bacteria domain 0.87 "Aquificae" phylum 0.12 Aquificae class 0.12 Desulfurobacteriales order 0.12 Desulfurobacteriaceae family 0.12 Balnearium genus 0.07
OTU_36 - Root rootrank 1.0 Bacteria domain 0.87 "Bacteroidetes" phylum 0.18 Cytophagia class 0.15 Cytophagales order 0.15 Cytophagaceae family 0.1 Persicitalea genus 0.09
OTU_37 Root rootrank 1.0 Bacteria domain 0.99 "Planctomycetes" phylum 0.2 Planctomycetia class 0.2 Planctomycetales order 0.16 Planctomycetaceae family 0.16 Aquisphaera genus 0.07
OTU_38 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.99 Staphylococcaceae family 0.99 Staphylococcus genus 0.99
OTU_39 - Root rootrank 1.0 Bacteria domain 0.92 "Proteobacteria" phylum 0.48 Betaproteobacteria class 0.17 Burkholderiales order 0.06 Comamonadaceae family 0.06 Tepidicella genus 0.06
OTU_40 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.98 Listeriaceae family 0.96 Listeria genus 0.96
OTU_41 - Root rootrank 1.0 Archaea domain 0.38 "Crenarchaeota" phylum 0.09 Thermoprotei class 0.09 Thermoproteales order 0.04 Thermoproteaceae family 0.04 Caldivirga genus 0.01
OTU_42 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 0.99 Bacilli class 0.99 Lactobacillales order 0.99 Lactobacillaceae family 0.98 Lactobacillus genus 0.96
OTU_43 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.98 Bacillaceae 2 family 0.79 Allobacillus genus 0.55
OTU_44 Root rootrank 1.0 Bacteria domain 1.0 "Bacteroidetes" phylum 1.0 "Bacteroidia" class 1.0 "Bacteroidales" order 1.0 "Porphyromonadaceae" family 0.98 Barnesiella genus 0.33
OTU_45 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.96 Deltaproteobacteria class 0.95 Bdellovibrionales order 0.95 Bdellovibrionaceae family 0.95 Vampirovibrio genus 0.95
OTU_46 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Bacillaceae 1 family 0.89 Bacillus genus 0.89
OTU_47 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Listeriaceae family 0.79 Listeria genus 0.79
OTU_48 - Root rootrank 1.0 Archaea domain 0.12 Diapherotrites phylum 0.02 Candidatus Iainarchaeum genus 0.02
OTU_49 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Bacillaceae 1 family 0.86 Bacillus genus 0.85
OTU_50 Root rootrank 1.0 Bacteria domain 0.77 "Bacteroidetes" phylum 0.15 Cytophagia class 0.04 Cytophagales order 0.04 Cytophagaceae family 0.04 Persicitalea genus 0.02
OTU_51 - Root rootrank 1.0 Bacteria domain 0.9 "Spirochaetes" phylum 0.06 Spirochaetia class 0.06 Spirochaetales order 0.06 Spirochaetales_incertae_sedis family 0.04 Exilispira genus 0.04
OTU_52 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 0.98 Enterococcaceae family 0.56 Enterococcus genus 0.31
OTU_53 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 0.78 Enterococcaceae family 0.6 Melissococcus genus 0.2
OTU_54 Root rootrank 1.0 Bacteria domain 0.93 "Bacteroidetes" phylum 0.26 "Bacteroidia" class 0.07 "Bacteroidales" order 0.07 "Bacteroidales"_incertae_sedis family 0.05 Phocaeicola genus 0.05
OTU_55 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 0.56 Gammaproteobacteria class 0.56 "Enterobacteriales" order 0.54 Enterobacteriaceae family 0.54 Cosenzaea genus 0.18
OTU_56 Root rootrank 1.0 Bacteria domain 0.91 Firmicutes phylum 0.27 Clostridia class 0.19 Clostridiales order 0.16 Peptococcaceae 2 family 0.04 Cryptanaerobacter genus 0.04
OTU_57 Root rootrank 1.0 Archaea domain 0.11 "Euryarchaeota" phylum 0.09 Thermoplasmata class 0.08 Methanomassiliicoccales order 0.08 Methanomassiliicoccaceae family 0.08 Methanomassiliicoccus genus 0.08
OTU_58 - Root rootrank 1.0 Bacteria domain 0.72 "Chloroflexi" phylum 0.12 Chloroflexia class 0.12 Kallotenuales order 0.12 Kallotenuaceae family 0.12 Kallotenue genus 0.12
OTU_59 Root rootrank 1.0 Bacteria domain 1.0 "Proteobacteria" phylum 1.0 Alphaproteobacteria class 1.0 Sphingomonadales order 1.0 Sphingomonadaceae family 1.0 Sphingomonas genus 1.0
OTU_60 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Staphylococcaceae family 1.0 Staphylococcus genus 1.0
OTU_61 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 0.97 Staphylococcaceae family 0.96 Staphylococcus genus 0.95
OTU_62 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 0.59 Bacilli class 0.59 Bacillales order 0.52 Planococcaceae family 0.15 Solibacillus genus 0.14
OTU_63 Root rootrank 1.0 Bacteria domain 0.9 "Tenericutes" phylum 0.04 Mollicutes class 0.04 Anaeroplasmatales order 0.03 Anaeroplasmataceae family 0.03 Asteroleplasma genus 0.03
OTU_64 Root rootrank 1.0 Bacteria domain 0.71 "Deinococcus-Thermus" phylum 0.08 Deinococci class 0.08 Thermales order 0.07 Thermaceae family 0.07 Vulcanithermus genus 0.05
OTU_65 Root rootrank 1.0 Bacteria domain 1.0 "Fusobacteria" phylum 1.0 Fusobacteriia class 1.0 "Fusobacteriales" order 1.0 "Leptotrichiaceae" family 1.0 Sneathia genus 0.57
OTU_66 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 0.33 Carnobacteriaceae family 0.28 Isobaculum genus 0.11
OTU_67 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 0.85 Enterococcaceae family 0.85 Enterococcus genus 0.73
OTU_68 - Root rootrank 1.0 Bacteria domain 0.92 Firmicutes phylum 0.34 Clostridia class 0.24 Clostridiales order 0.21 Lachnospiraceae family 0.04 Howardella genus 0.03
OTU_69 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Bacillales order 1.0 Staphylococcaceae family 1.0 Staphylococcus genus 1.0
OTU_70 Root rootrank 1.0 Bacteria domain 1.0 Firmicutes phylum 1.0 Bacilli class 1.0 Lactobacillales order 0.99 Lactobacillaceae family 0.98 Lactobacillus genus 0.98
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