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
|
End of preview. Expand
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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