LOC_000PFJ3.1

Download

Greece/LOC_000PFJ3.1/2015-06-29

A. Papa, E. Papadopoulou, K. Tsioka, A. Kontana, S. Pappa, A. Melidou, N. D. Giadinis & N. Giadinis

Aristotle University of Thessaloniki, Dept. of Microbiology

Sample details

Collection date

2015-06-29

Earliest release date

2018-03-21

Sampling location

Greece

Isolate name

Pentalofos-Greece-2015

Data use terms

OPEN

Data use terms URL

https://#TODO-MVP/open

INSDC

NCBI release date

2018-03-21

INSDC accession L

MG516213.1

INSDC accession M

MG516212.1

INSDC accession S

MG516211.1

Host

hard ticks; hardbacked ticks; scale ticks (Rhipicephalus bursa)

Submission details

Submission ID

MG516213.1.L/MG516212.1.M/MG516211.1.S

Submitting group

Automated Ingest from INSDC/NCBI Virus by Loculus

Date submitted

2026-10-06 18:02:33 UTC

Date released

2026-10-06 18:04:33 UTC

Lineage

Segment S Lineage

Files

Annotations

LOC_000PFJ3.1.embl

Alignment and QC

Total SNPs L

2710

Total inserted nucs L

Total deleted nucs L

Length L

12167 (100%)

Total SNPs M

1555

Total inserted nucs M

109

Total deleted nucs M

Length M

5432 (100%)

Total SNPs S

339

Total inserted nucs S

Total deleted nucs S

Length S

1674 (100%)

Nucleotide mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

L

G23T
T24C
C27T
G32A
A35G
A36T
A40T
A42G
G43T
A44G
T47A
C48T
T49A
A50G
G51A
T55C
T58C
T62G

M

A30T
G38A
T40C
C43T
T44C
G50A
A51G
A52T
G56T
A57G
T59G
G60A
G62A
T67C
A69G
A70C
T71A
G76A

S

T23C
C38A
T49A
G54A
A61G
C64T
G67A
T79C
A81G
G91T
A92C
G99A
A109G
A118G
A130G
C154T
T157C
T163C

Deletions

L

11946-11957

M

393-431, 5167-5170

S

1640, 1641

Insertions

L

ins_55:A, ins_11927:TTTACAA, ins_11969:CGGGACCCATCAT, ins_12017:GTTGTGGCCTATTCTAGCCAGCATTGTTCCCAGATACTGACCGTCTAACT

M

ins_191:GGCACTGCCTTCAATTCAGTGCACAATGTCACCACCAATAGTCAAAGGCTGGCC, ins_689:AGT, ins_5267:GTGTGCAATTCCGCCGAACAG, ins_5292:GTCCACAAGAATCAACAAAGCAGAATACCGC

S

ins_1584:ATGC

Amino acid substitutions

Substitutions called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references