TB-Profiler result

Run: SRR4033302
Summary

Run ID: SRR4033302

Sample name:

Date: 04-04-2023 05:58:59

Number of reads: 470127

Percentage reads mapped: 99.52

Strain: lineage2.2.1

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9138 p.Gln613* stop_gained 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576332 p.Pro329Ser missense_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761831 c.2025C>A synonymous_variant 0.17
rpoB 761983 p.Glu726Gly missense_variant 0.17
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763504 c.135C>T synonymous_variant 0.33
rpoC 765658 c.2289C>T synonymous_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781489 c.-71G>A upstream_gene_variant 0.18
fbiC 1303254 c.324C>A synonymous_variant 0.12
Rv1258c 1406297 c.1044A>G synonymous_variant 0.18
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475257 n.1600C>A non_coding_transcript_exon_variant 0.33
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102015 p.Val343Ala missense_variant 0.18
ndh 2102079 p.Asp322Asn missense_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.43
ribD 2986751 c.-88C>T upstream_gene_variant 0.22
thyA 3074458 p.Glu5Gly missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 0.91
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641631 p.Val33Ile missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.29
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246325 c.-189G>A upstream_gene_variant 0.4
embB 4247374 c.861C>T synonymous_variant 0.18
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268528 c.309C>T synonymous_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0