Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Ramón y Cajal (Madrid)
Hospital Admission Unit None
Patient Sex F
Patient Age 91
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella variicola
Carbapenamase type(s) OXA-48
MLST 0:
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T >256 R R
CTX >128 R R
CAZ >128 R R
CAZ-AVI 0.5 S S
CEF >128 R R
AZT >128 R R
MEM 1 S S
IMI 2 I S
IMI-RELE 1 S S
ERT 128 R R
FOSFO <32 S S
GENTA ≤0.25 S S
TOBRA 0.5 S S
AMK 128 R R
CIP >128 R R
COLIS 0.5 WT S
AN2335_v1
AN2335_v1

Sample 166 was assembled with Unicycler_v0.4.6 into 24 scaffolds, 3 of which are closed circles. More details can be found in the table below. Raw data such as the assembly FASTA and annotation files can be downloaded from the "Raw Data" box. The assembly can be browsed by clicking on the "Browse" link for each scaffold.

Scaffold Sample ST Jbrowse Resistance Genes All Genes Scaffold length Circular Est. Copy Number Species GC content Mobility Replicon type Replicon type accession Relaxase type Relaxase type accession MPF type Mpf type accession OriT type OriT accession MASH nearest neighbor MASH neighbor distance MASH neighbor cluster
AN2335_v1_c1 166 0 Browse 7 2418 2588595 0.96
Klebsiella variicola
58.01 Non-mobilizable - - - - - - - - MF062700 0.26302200 363
AN2335_v1_c2 166 0 Browse 5 1043 1118343 1.07
Klebsiella sp.
57.68 Non-mobilizable - - - - - - - - CP008701 0.23011000 1229
AN2335_v1_c3 166 0 Browse 5 561 605020 1.09
Klebsiella variicola
57.24 Non-mobilizable - - - - - - - - CP008701 0.21953100 1229
AN2335_v1_c4 166 0 Browse 4 413 475286 1.00
Klebsiella variicola
57.26 Non-mobilizable - - - - - - - - AB576781 0.26302200 369
AN2335_v1_c5 166 0 Browse 2 333 376370 1.06
Klebsiella sp.
57.65 Non-mobilizable - - - - - - - - KY887592 0.21953100 960
AN2335_v1_c6 166 0 Browse 0 251 266684 1.05
Klebsiella oxytoca
52.01 Non-mobilizable - - - - - - - - CP000965 0.19729200 1529
AN2335_v1_c7 166 0 Browse 0 77 86528 1.05
Klebsiella variicola
57.09 Non-mobilizable - - - - - - - - CP019447 0.18226900 1447
AN2335_v1_c8 166 0 Browse 1 84 65499 8.98
Klebsiella pneumoniae
51.43 Conjugative IncL/M 000148__NC_021488_00028 MOBP NC_004464_00056 MPF_I NC_004464_00105, NC_005246_00057, NC_019063_00094, NC_019344_00078, NC_004464_00066, NC_004464_00068, NC_019154_00069, NC_005246_00069, NC_004464_00073 - - KX523901 0.00007159 681
AN2335_v1_c9 166 0 Browse 1 34 39671 0.99
Klebsiella variicola
55.55 Non-mobilizable - - - - - - - - CP006253 0.13239900 1446
AN2335_v1_c10 166 0 Browse 0 28 27114 5.63
Klebsiella michiganensis
55.88 Non-mobilizable - - - - - - - - CP021680 0.24376100 1068
AN2335_v1_c11 166 0 Browse 0 2 4647 0.90
Klebsiella variicola
48.53 Non-mobilizable - - - - - - - - CP022158 0.24376100 363
AN2335_v1_c12 166 0 Browse 0 2 2520 1.93
Klebsiella variicola
63.06 Non-mobilizable - - - - - - - - CP022158 0.12571500 363
AN2335_v1_c13 166 0 Browse 0 0 1711 7.51
Klebsiella variicola
53.36 Non-mobilizable - - - - - - - - CP006253 0.14572700 1446
AN2335_v1_c14 166 0 Browse 0 0 1635 4.20
Klebsiella sp., Klebsiella variicola
53.46 Non-mobilizable - - - - - - - - CP006253 0.15194600 1446
AN2335_v1_c15 166 0 Browse 0 0 1182 7.51
-
52.71 Non-mobilizable - - - - - - - - CP006253 0.15914600 1446
AN2335_v1_c16 166 0 Browse 0 0 321 3.14
Klebsiella sp., Klebsiella variicola
48.29 Non-mobilizable - - - - - - - - CP006253 0.23011000 1446
AN2335_v1_c17 166 0 Browse 0 0 237 2.86
Klebsiella pneumoniae, Klebsiella sp., Klebsiella variicola
49.79 Non-mobilizable - - - - - - - - CP019447 0.26302200 1447
AN2335_v1_c18 166 0 Browse 0 0 202 1.26
Klebsiella variicola
49.50 Non-mobilizable - - - - - - - - 1.00000000
AN2335_v1_c19 166 0 Browse 0 0 153 1.44
Klebsiella sp., Klebsiella variicola
52.94 Non-mobilizable - - - - - - - - 1.00000000
AN2335_v1_c20 166 0 Browse 0 0 151 1.07
Klebsiella quasivariicola, Klebsiella sp., Klebsiella variicola
33.11 Non-mobilizable - - - - - - - - CP019447 0.26302200 1447
AN2335_v1_c21 166 0 Browse 0 0 138 1.78
Klebsiella variicola
56.52 Non-mobilizable - - - - - - - - 1.00000000
AN2335_v1_c22 166 0 Browse 0 0 136 2.33
-
55.15 Non-mobilizable - - - - - - - - CP019447 0.29598100 1447
AN2335_v1_c23 166 0 Browse 0 0 120 2.23
Klebsiella pneumoniae, Klebsiella quasivariicola, Klebsiella sp., Klebsiella variicola
45.00 Non-mobilizable - - - - - - - - 1.00000000
AN2335_v1_c24 166 0 Browse 0 0 110 6.26
-
60.00 Non-mobilizable - - - - - - - - CP006253 0.26302200 1446