PPD_00JLZYD.1

Argentina/PPD_00JLZYD.1/2022

C. M. Bellomo, D. O. Alonso, V. P. Martinez, J. Sanchez Loria & J. Campos

INEI-ANLIS "Dr C. G. Malbran", Virology

Sample details

Collection date

2022

Sampling location

Argentina

Isolate name

Lechiguanas

Data use terms

Changed	User	Data use terms
2026-05-09 18:05	insdc_ingest_user	OPEN

OPEN

Data use terms URL

https://pathoplexus.org/about/terms-of-use/open-data

INSDC

INSDC accession M

OR890440.1

INSDC accession S

OR890439.1

NCBI release date

2024-07-01

Host

yellow pygmy rice rat (Oligoryzomys flavescens)

Submission details

Submission ID

OR890440.1.M/OR890439.1.S

Submitting group

Automated Ingest from INSDC/NCBI Virus by Loculus

Date submitted

2026-05-09 18:05:13 UTC

Date released

2026-05-09 18:06:54 UTC

Earliest release date

2024-07-01

Alignment and QC

Length M

3653 (100%)

# of SNPs M

746

# of inserted bases M

# of deleted bases M

Length S

1938 (100%)

# of SNPs S

306

# of inserted bases S

# of deleted bases S

Nucleotide mutations

Mutations called relative to the NC_003468.2, NC_003467.2 & NC_003466.1 references

Substitutions

M

A32C
T34G
A37G
G38A
G43T
G45T
T46A
T47G
T48A
C67T
G70A
T75C
C76T
T78G
A89C
G93C
C94G
G114A

S

G28A
G63A
G66A
A71G
C72T
G120A
G129A
G133A
A135G
C156G
T202C
C216T
A219G
T225C
G231A
T244C
T262C
A321G

Deletions

M

3473-3493, 3575-3579, 3583-3585

S

1355-1357, 1398-1400, 1500, 1527-1532, 1594, 1595, 1632, 1633, 1639, 1651-1653, 1659-1661, 1670, 1671, 1679-1681, 1745, 1746

Insertions

M

ins_51:G, ins_3501:TC, ins_3545:CTTCTCC, ins_3560:A

S

ins_1337:AAATTTAAGAGCCATCACTGCCATAAGAGCCAGAACTAGTCAATATC, ins_1341:GATT, ins_1368:G, ins_1383:T, ins_1451:A, ins_1483:C, ins_1546:ATGTCAA, ins_1555:CCCAAT, ins_1577:ATAGA, ins_1583:GTTTGA, ins_1591:ATA, ins_1648:GA, ins_1689:ATTCTTCATTTTT, ins_1756:T

Amino acid substitutions

Substitutions called relative to the NC_003468.2, NC_003467.2 & NC_003466.1 references