Dataset Viewer
genome_name
string | contig_name
sequence | start
sequence | end
sequence | product
sequence | locus_tag
sequence | protein_sequence
sequence | strand
sequence | genome_length
string | genome_completeness
string | genome_sample_accession
string | genome_study_accession
string | family
string | genus
string | species
string | __index_level_0__
int64 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
MGYG000055336 | [">MGYG000055336_1",">MGYG000055336_10",">MGYG000055336_11",">MGYG000055336_12",">MGYG000055336_13",(...TRUNCATED) | [["100433","100884","101764","103002","10310","104051","105788","107239","107517","108294","109181",(...TRUNCATED) | [["100837","101531","103005","103895","11476","105718","107242","107463","108212","109184","109615",(...TRUNCATED) | [["hypothetical protein","hypothetical protein","Divalent metal cation transporter MntH","HTH-type t(...TRUNCATED) | [["Unknown","Unknown","mntH","rhaR_1","Unknown","malL_1","dinB","Unknown","pdaC","Unknown","Unknown"(...TRUNCATED) | [["MKRLITTICAVFVFCFVLSGTAVQAAAEYQGTLSKDYRMSWSNGTNKVYYATYPEGGTHMNKMNVYRCDRNGKNNKLLFTQNVDDENGYIIPEEFTA(...TRUNCATED) | [["+","-","+","-","-","+","+","+","+","+","+","+","+","+","+","+","-","+","+","-","+","+","+","+","-(...TRUNCATED) | 3069412 | 98.97 | Lachnospiraceae | Agathobacter | Agathobacter faecis | 80 |
||
MGYG000087188 | [">MGYG000087188_1",">MGYG000087188_10",">MGYG000087188_11",">MGYG000087188_12",">MGYG000087188_13",(...TRUNCATED) | [["101136","101473","11333","12187","13235","14177","17500","18369","19844","21550","22263","23029",(...TRUNCATED) | [["101435","102954","12187","13029","13840","17374","18276","19781","21319","22119","22964","26736",(...TRUNCATED) | [["hypothetical protein","hypothetical protein","L-arabinose transport system permease protein AraP"(...TRUNCATED) | [["Unknown","Unknown","araP","araQ_1","Unknown","Unknown","Unknown","Unknown","aroP","Unknown","Unkn(...TRUNCATED) | [["MNQKNGRTDPGPLRERARSLFISQAAIDETLEWATPRQLAAIDRMLATELANREACVCSIESGPCERVDVFHVSGRFWSTSACGEKRTPARPAWTSF(...TRUNCATED) | [["+","+","+","+","+","+","-","+","-","-","+","+","+","-","+","+","+","+","+","+","-","+","-","+","-(...TRUNCATED) | 2119044 | 94.85 | SRS1876445 | SRP095580 | Bifidobacteriaceae | Bifidobacterium | Bifidobacterium infantis | 84 |
MGYG000025200 | [">MGYG000025200_1",">MGYG000025200_10",">MGYG000025200_100",">MGYG000025200_101",">MGYG000025200_10(...TRUNCATED) | [["100774","101776","103654","105670","106933","107756","10864","109148","110301","111232","113328",(...TRUNCATED) | [["101538","103491","105591","106629","107781","108937","11508","110215","111074","113325","113915",(...TRUNCATED) | [["hypothetical protein","Single-stranded-DNA-specific exonuclease RecJ","DEAD-box ATP-dependent RNA(...TRUNCATED) | [["Unknown","recJ","cshA_1","bepA_1","pheA","dapL_1","Unknown","kdsA_1","Unknown","dnaG_1","folE","U(...TRUNCATED) | [["MLTFISCAKTMASHCSLKVPEVTVPYFEAEAVRNALEMSQVSAAELEKLLKVNAKIAAENKVRFHDFCSEDNRPMPAIGAYTGAVFKRILPKDFTAD(...TRUNCATED) | [["-","+","+","+","+","+","-","+","+","+","-","-","-","-","-","-","-","-","-","-","-","-","-","-","-(...TRUNCATED) | 3492901 | 77.93 | SRS584759 | SRP040765 | Bacteroidaceae | Bacteroides | Bacteroides stercoris | 33 |
MGYG000158007 | [">MGYG000158007_1",">MGYG000158007_10",">MGYG000158007_100",">MGYG000158007_101",">MGYG000158007_10(...TRUNCATED) | [["10005","11206","1142","12190","13346","14354","15514","16520","1763","17879","18543","19286","195(...TRUNCATED) | [["11177","12153","1693","13311","14314","15517","16515","17851","2131","18541","19079","19423","206(...TRUNCATED) | [["hypothetical protein","putative glycosyltransferase EpsJ","hypothetical protein","Putative glycos(...TRUNCATED) | [["Unknown","epsJ","Unknown","epsF_1","Unknown","Unknown","hddA","hisB_1","Unknown","gmhA","lpxD","U(...TRUNCATED) | [["MENISRIKEKCVGCKSCEQSCPKHCISMVENKEGFWYPSVDEKSCIECKVCLKKCPVENTEFHRNEPHKVWAWRNKNDVDIMRSASGGAADSAAKTI(...TRUNCATED) | [["+","+","+","+","+","+","+","+","-","+","+","+","+","+","+","+","+","+","+","+","+","+","+"],["-",(...TRUNCATED) | 2428297 | 65.1 | ERS199128 | ERP002061 | Lachnospiraceae | Agathobacter | Agathobacter faecis | 81 |
MGYG000180682 | [">MGYG000180682_1",">MGYG000180682_10",">MGYG000180682_11",">MGYG000180682_12",">MGYG000180682_13",(...TRUNCATED) | [["100042","10014","100860","103680","104004","105425","106148","10711","107112","107466","109033","(...TRUNCATED) | [["100776","10568","103568","103961","105428","106054","106996","12312","107462","109007","110532","(...TRUNCATED) | [["Glycerol facilitator-aquaporin gla","hypothetical protein","Potassium-transporting ATPase ATP-bin(...TRUNCATED) | [["gla","Unknown","kdpB_1","ricR","Unknown","Unknown","Unknown","pepD_1","gatC","gatA","gatB","Unkno(...TRUNCATED) | [["MDYPLFTKLAAEFFGTAILMIFGNGSVANVELKNTKGHHAGWLNIAMGYGFGVMFPVLMFGSVSGAHINPAMTIAQAVNGLFPWSDVLPYIVAQLLG(...TRUNCATED) | [["+","+","-","+","+","+","+","+","+","+","+","+","+","+","+","+","+","+","+","-","+","-","+","+","+(...TRUNCATED) | 2111784 | 95.05 | ERS473140 | ERP005989 | Bifidobacteriaceae | Bifidobacterium | Bifidobacterium infantis | 93 |
MGYG000071240 | [">MGYG000071240_1",">MGYG000071240_10",">MGYG000071240_11",">MGYG000071240_12",">MGYG000071240_13",(...TRUNCATED) | [["100261","102078","102514","103369","10464","104841","106576","108055","109990","110330","111993",(...TRUNCATED) | [["102081","102365","103266","104841","11438","106370","108021","109845","110328","111625","113264",(...TRUNCATED) | [["protein kinase UbiB","hypothetical protein","Cobyric acid synthase","UDP-N-acetylmuramoylalanine-(...TRUNCATED) | [["ubiB","Unknown","cobQ","murD_1","Unknown","Unknown","mdtK","glnD","glnB","amt","ftsY","Unknown","(...TRUNCATED) | [["MTKPTRATPESGSTPLSSRVDPILTPAKAEREAAANRSVDTSDTLKQTVTKATPSVSDETLALFGRRNDFATRYHLTRRGKIKRLGQITRIVEQFDV(...TRUNCATED) | [["-","-","-","-","-","-","+","-","-","-","-","+","+","-","-","+","+","+","-","-","+","-","+","+","-(...TRUNCATED) | 2181247 | 97.24 | ERS473197 | ERP005989 | Bifidobacteriaceae | Bifidobacterium | Bifidobacterium infantis | 17 |
MGYG000202014 | [">MGYG000202014_1",">MGYG000202014_10",">MGYG000202014_100",">MGYG000202014_101",">MGYG000202014_10(...TRUNCATED) | [["10389","10913","1157","13700","14338","15317","16327","16626","17384","17767","18066","18975","22(...TRUNCATED) | [["10832","13507","3424","14317","15234","16339","16623","17222","17728","18063","18659","21875","25(...TRUNCATED) | [["hypothetical protein","Chaperone protein ClpB 1","Glutathione-regulated potassium-efflux system p(...TRUNCATED) | [["Unknown","clpB1","kefB_1","Unknown","cysL","Unknown","Unknown","Unknown","Unknown","Unknown","Unk(...TRUNCATED) | [["MLKTILSISGKPGLYKLISQGKNMLIVESLVDKKRFPAYGNEKIISLGDIAMYTDTEEVPLKDVLLSMKKKENGAAVALDVKKASVKELQAYLAEVL(...TRUNCATED) | [["+","-","+","+","+","+","-","-","+","-","-","+","-","-","-","-","-","-","-","-","+","-","-","-","-(...TRUNCATED) | 2398833 | 62.93 | SRS259449 | SRP008047 | Bacteroidaceae | Bacteroides | Bacteroides stercoris | 36 |
MGYG000281886 | [">MGYG000281886_1",">MGYG000281886_10",">MGYG000281886_100",">MGYG000281886_101",">MGYG000281886_10(...TRUNCATED) | [["102049","103454","104900","106340","107029","107824","109124","10913","110533","111593","113434",(...TRUNCATED) | [["103401","104530","106420","106630","107814","108957","110404","11428","111096","113395","115128",(...TRUNCATED) | [["Succinyl-diaminopimelate desuccinylase","Chorismate synthase","hypothetical protein","hypothetica(...TRUNCATED) | [["dapE_1","aroC","Unknown","Unknown","Unknown","Unknown","Unknown","ogt","slyD","ilvD","ilvG","Unkn(...TRUNCATED) | [["MEIKKYIAENESGMLEELFSLIRIPSISAKPEHHDDMLACAERWAQLLLAAGADEALVMPSAGNPIVFGQKIVDPKAKTVLIYAHYDVMPAEPLELW(...TRUNCATED) | [["-","-","+","-","-","-","+","+","-","+","+","-","+","+","+","+","+","-","+","+","+","+","+","+","-(...TRUNCATED) | 2927722 | 85.91 | SRS1846900 | SRP094805 | Bacteroidaceae | Bacteroides | Bacteroides stercoris | 82 |
MGYG000259104 | [">MGYG000259104_1",">MGYG000259104_10",">MGYG000259104_11",">MGYG000259104_12",">MGYG000259104_13",(...TRUNCATED) | [["100527","10124","101812","102677","103147","104038","105352","106190","107280","108417","109399",(...TRUNCATED) | [["101720","11356","102624","103150","104016","105342","105501","107146","108389","109388","110898",(...TRUNCATED) | [["hypothetical protein","3-oxoacyl-[acyl-carrier-protein] synthase 2","hypothetical protein","hypot(...TRUNCATED) | [["Unknown","fabF","Unknown","Unknown","Unknown","Unknown","Unknown","Unknown","araR_1","rbsC_1","rb(...TRUNCATED) | [["MHKKSSAGTGTYSIIFGVAFVWFTTHFGGGFASGAQIYSYYVRFGIWCLIMPALAMLYNGIFFAYGIRFARKHEVYDYRSYNNAFYGKFAPVFSNLF(...TRUNCATED) | [["+","-","+","-","-","-","-","-","-","-","-","-","-","+","-","-","+","-","-","-","-","-","-","-","-(...TRUNCATED) | 2835115 | 94.38 | SRS1820322 | SRP093965 | Lachnospiraceae | Agathobacter | Agathobacter faecis | 69 |
MGYG000176636 | [">MGYG000176636_1",">MGYG000176636_10",">MGYG000176636_100",">MGYG000176636_101",">MGYG000176636_10(...TRUNCATED) | [["11044","11429","12163","13178","1478","14950","2021","3526","4259","5185","7112","7964","8691","9(...TRUNCATED) | [["11424","12058","13041","14905","2020","15372","3373","4293","5194","7161","7945","8458","9269","9(...TRUNCATED) | [["hypothetical protein","Guanylate kinase","hypothetical protein","putative protein YloA","CDP-diac(...TRUNCATED) | [["Unknown","gmk_1","Unknown","yloA","pgsA","Unknown","rimO","Unknown","Unknown","Unknown","Unknown"(...TRUNCATED) | [["MIHPSYTELMAVINSEVEEGEQPLVQSRYSIVKATANRAKEIIDARSVEEKIAKARIEASNKEKEKEKDKDKIEEKRISKEDERKLQVGTPLVRCSE(...TRUNCATED) | [["-","-","-","+","-","-","-","+","-","-","-","-","-","-","-","-"],["-","-","-","-","+","+","-","+",(...TRUNCATED) | 1867605 | 68.3 | SRS1996016 | SRP100518 | Lachnospiraceae | Lachnospira | Lachnospira eligens | 65 |
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in Data Studio
Small sample dataset for whole-bacterial genomes clustering (protein sequences)
A small sample dataset for testing strain clustering by embedding protein sequences.
The genome protein sequences have been extracted from MGnify. Each row contains a set of contigs with protein sequences present in the genome. Each contig is a list of proteins ordered by their location on the chromosome or plasmid.
Usage
See the Bacformer strain clustering tutorial for an example on how to use the dataset.
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