Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Lucus Augusti (Lugo)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 84
Community/Hospital/LTCF acquisition Hospital
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 15:gapA(1), infB(1), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(1)
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 0.5 S S
IMI-RELE 0.25 S S
ERT 16 R R
FOSFO >256 R R
GENTA 16 R R
TOBRA 16 R R
AMK 16 S R
CIP >128 R R
COLIS <0.06 WT S
AN2358_v1
AN2358_v1

Sample 493 was assembled with Unicycler_v0.4.6 into 13 scaffolds, 2 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
AN2358_v1_c1 493 15 Browse 12 1649 1801616 0.99
Klebsiella pneumoniae
57.34 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.16466200 1583
AN2358_v1_c2 493 15 Browse 8 1432 1574136 1.00
Klebsiella pneumoniae
57.82 Non-mobilizable - - - - - - - - CP003224 0.24376100 1588
AN2358_v1_c3 493 15 Browse 7 802 831917 1.04
Klebsiella pneumoniae
57.11 Non-mobilizable - - - - - - - - CP006642 0.15661900 991
AN2358_v1_c4 493 15 Browse 5 471 502557 1.04
Klebsiella pneumoniae
57.89 Non-mobilizable - - - - - - - - CP008790 0.20360400 966
AN2358_v1_c5 493 15 Browse 0 329 369021 1.06
Klebsiella pneumoniae
56.90 Non-mobilizable - - - - - - - - CP007735 0.16768800 771
AN2358_v1_c6 493 15 Browse 0 86 94033 1.01
Klebsiella pneumoniae
57.28 Non-mobilizable - - - - - - - - KP868646 0.29598100 1231
AN2358_v1_c7 493 15 Browse 0 77 86453 1.02
Klebsiella pneumoniae
57.25 Non-mobilizable - - - - - - - - CP019447 0.17092600 1447
AN2358_v1_c8 493 15 Browse 1 84 65498 4.07
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 0.00136596 681
AN2358_v1_c9 493 15 Browse 17 65 57792 5.68
Klebsiella pneumoniae
51.21 Non-mobilizable IncR, rep_cluster_1418 000204__CP008701_00115, 000759__NC_013950_00034 - - - - - - CP021953 0.01263470 728
AN2358_v1_c10 493 15 Browse 1 35 39544 0.92
Klebsiella pneumoniae
55.82 Non-mobilizable - - - - - - - - CP006253 0.14383000 1446
AN2358_v1_c11 493 15 Browse 0 12 11955 40.30
Klebsiella pneumoniae
55.63 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - CP006658 0.00246360 765
AN2358_v1_c12 493 15 Browse 0 0 5149 10.65
Klebsiella pneumoniae
52.61 Non-mobilizable - - - - - - - - CP006253 0.10084600 1446
AN2358_v1_c13 493 15 Browse 0 0 197 3.18
Escherichia coli, Klebsiella pneumoniae
53.81 Non-mobilizable - - - - - - - - 1.00000000