Example results
Each strain can also be viewed on our guide tree by clicking "Look on tree". Every strain has a link to RefSeq database where it was obtained from.
To learn more how to interpret the results, CLICK HERE.
Dataset used in this example is from Human Microbiome Project (Mock Community), sample "Illumina sequencing of HMP Mock Community even sample "(Sample in SRA database). You can also download the sample from our website in FASTA format if you prefer not to work with sra format (Sample in FASTA format)
The sample was obtained by mixing various bacteria in the lab and performing Illumina sequencing directly on the mixed sample. It gives a good overview how StrainSeeker handles metagenomic samples.
LIST OF STRAINS DETECTED IN THE SAMPLE FILE SRR172902.fastq.gz (Strains present in the database are with green background and novel strains with yellow background).
Download results
| Strain | Relative frequency in sample | Related to database strains (for novel strains) |
|---|---|---|
| Deinococcus_radiodurans_R1_chromosome_1 Look on tree | 28.30% | |
| Acinetobacter_baumannii_ATCC_17978-mff Look on tree | 8.86% | |
| Novel strain 1 Look on tree | 6.06% | Staphylococcus_aureus_strain_M121 Staphylococcus_aureus_subsp_aureus_strain_USA300_2014C01 Staphylococcus_aureus_USA300-ISMMS1 Staphylococcus_aureus_strain_CA15 Staphylococcus_aureus_strain_V2200 Staphylococcus_aureus_subsp_aureus_USA300_FPR3757 Staphylococcus_aureus_subsp_aureus_strain_USA300_2014C02 Staphylococcus_aureus_subsp_aureus_USA300_TCH1516 Staphylococcus_aureus_strain_25b_MRSA Staphylococcus_aureus_strain_27b_MRSA Staphylococcus_aureus_strain_33b Staphylococcus_aureus_strain_26b_MRSA Staphylococcus_aureus_strain_29b_MRSA Staphylococcus_aureus_strain_UA-S391_USA300 Staphylococcus_aureus_strain_31b_MRSA |
| Streptococcus_pneumoniae_TIGR4_chromosome Look on tree | 5.64% | |
| Bacteroides_vulgatus_ATCC_8482 Look on tree | 5.24% | |
| Staphylococcus_epidermidis_ATCC_12228_chromosome Look on tree | 4.70% | |
| Propionibacterium_acnes_KPA171202 Look on tree | 4.67% | |
| Novel strain 2 Look on tree | 4.46% | Helicobacter_pylori_strain_26695-1MET Helicobacter_pylori_26695-1CL_DNA Helicobacter_pylori_26695-1 Helicobacter_pylori_26695-1CH_DNA Helicobacter_pylori_26695-1_DNA |
| Streptococcus_mutans_UA159_chromosome Look on tree | 3.39% | |
| Staphylococcus_aureus_subsp_aureus_CN1 Look on tree | 3.27% | |
| Novel strain 3 Look on tree | 3.24% | Staphylococcus_aureus_strain_MSSA476 Staphylococcus_aureus_subsp_aureus_MW2_DNA |
| Novel strain 4 Look on tree | 3.03% | Staphylococcus_aureus_subsp_aureus_strain_GR2 |
| Neisseria_meningitidis_MC58_chromosome Look on tree | 3.03% | |
| Novel strain 5 Look on tree | 2.82% | Staphylococcus_aureus_subsp_aureus_ST772-MRSA-V_strain_DAR4145 Staphylococcus_aureus_strain_SA564 Staphylococcus_aureus_strain_502A Staphylococcus_aureus_subsp_aureus_JH9 Staphylococcus_aureus_subsp_aureus_ST228_complete_genome Staphylococcus_aureus_subsp_aureus_ED98 Staphylococcus_aureus_04-02981 Staphylococcus_aureus_subsp_aureus_ECT-R_2_complete_genome Staphylococcus_aureus_subsp_aureus_Mu50_DNA Staphylococcus_aureus_strain_FCFHV36 Staphylococcus_aureus_subsp_aureus_Mu3_DNA Staphylococcus_aureus_subsp_aureus_N315_DNA Staphylococcus_aureus_subsp_aureus_JH1 |
| Streptococcus_mutans_UA159-FR Look on tree | 2.32% | |
| Novel strain 6 Look on tree | 1.96% | Rhodobacter_sphaeroides_241_chromosome_1 Rhodobacter_sphaeroides_ATCC_17029_chromosome_1 Rhodobacter_sphaeroides_WS8N_chromosome_chrI Rhodobacter_sphaeroides_KD131_chromosome_1 |
| Novel strain 7 Look on tree | 1.84% | Listeria_monocytogenes_strain_SLCC2372 Listeria_monocytogenes_FSL_R2-561 Listeria_monocytogenes_strain_SLCC2479 |
| Clostridium_beijerinckii_NCIMB_8052 Look on tree | 1.61% | |
| Enterococcus_faecalis_OG1RF Look on tree | 1.38% | |
| Novel strain 8 Look on tree | 1.35% | Escherichia_coli_K-12_GM4792_Lac- Escherichia_coli_BW25113 Escherichia_coli_strain_CQSW20 Escherichia_coli_strain_K-12_substrain_MG1655_TMP32XR2 Escherichia_coli_strain_K-12_substrain_MG1655_TMP32XR1 Escherichia_coli_KLY Escherichia_coli_K-12_strain_ER3435 Escherichia_coli_BW2952 Escherichia_coli_ER2796 Escherichia_coli_DH1 Escherichia_coli_strain_RR1 Escherichia_coli_K-12_strain_ER3476 Escherichia_coli_str_K-12_substr_MG1655_chromosome Escherichia_coli_K-12_strain_ER3466 Escherichia_coli_str_K-12_substr_MG1655 Escherichia_coli_strain_SQ2203 Escherichia_coli_K-12_strain_ER3413 Escherichia_coli_genome_assembly_EcRV308Chr Escherichia_coli_K-12_strain_ER3445 Escherichia_coli_K-12_genome_assembly_EcoliK12AG100 Escherichia_coli_strain_DH1Ec104 Escherichia_coli_strain_DH1Ec169 Escherichia_coli_str_K12_substr_DH10B Escherichia_coli_K-12_strain_ER3475 Escherichia_coli_str_K12_substr_W3110_DNA Escherichia_coli_strain_SQ37 Escherichia_coli_str_K-12_substr_MC4100_complete_genome Escherichia_coli_strain_SQ88 Escherichia_coli_K-12_strain_ER3454 Escherichia_coli_K-12_strain_ER3446 Escherichia_coli_strain_DH1Ec095 Escherichia_coli_DH1_ME8569_DNA Escherichia_coli_genome_assembly_EcHMS174Chr Escherichia_coli_K-12_strain_ER3440 |
| Methanobrevibacter_smithii_ATCC_35061 Look on tree | 1.11% | |
| Pseudomonas_aeruginosa_PAO1_chromosome Look on tree | 1.09% | |
| Bacillus_cereus_ATCC_10987 Look on tree | 0.45% | |
| Streptococcus_agalactiae_2603VR_chromosome Look on tree | 0.14% | |
| Lactobacillus_gasseri_ATCC_33323 Look on tree | 0.05% |