TB-Profiler result

Run: SRR6896504
Summary

Run ID: SRR6896504

Sample name:

Date: 04-04-2023 18:08:07

Number of reads: 329566

Percentage reads mapped: 96.0

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
gyrB 5749 c.510G>A synonymous_variant 0.22
gyrA 7210 c.-92C>T upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
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
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763736 p.Lys123Glu missense_variant 0.11
rpoC 766748 p.Pro1127Thr missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777198 p.Asn428Ser missense_variant 0.13
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781532 c.-27delA upstream_gene_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407138 p.Tyr68Cys missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471997 n.152T>C non_coding_transcript_exon_variant 0.12
rrl 1474863 n.1206A>G non_coding_transcript_exon_variant 0.12
rrl 1475217 n.1561dupC non_coding_transcript_exon_variant 0.11
rrl 1475715 n.2058G>T non_coding_transcript_exon_variant 0.12
rrl 1475836 n.2179C>T non_coding_transcript_exon_variant 0.14
rrl 1476291 n.2634G>T non_coding_transcript_exon_variant 0.17
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.15
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.15
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.14
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.14
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.14
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.14
inhA 1673625 c.-577C>T upstream_gene_variant 0.15
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154625 p.Arg496Pro missense_variant 0.13
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154858 c.1254A>T synonymous_variant 0.11
PPE35 2167890 p.Gly908Asp missense_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222523 c.642C>A synonymous_variant 0.12
Rv1979c 2222595 c.570G>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714439 c.894C>A synonymous_variant 0.18
pepQ 2860102 p.Gly106Val missense_variant 0.14
pepQ 2860137 c.281dupA frameshift_variant 0.17
thyX 3067689 p.Ser86Leu missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448839 c.336G>T synonymous_variant 0.12
Rv3083 3448842 p.Gln113His missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3612912 c.205T>C synonymous_variant 0.15
fbiA 3641034 c.494delA frameshift_variant 0.22
fbiB 3641594 c.60G>T synonymous_variant 0.2
fbiB 3642406 p.His291Arg missense_variant 0.17
clpC1 4040093 c.612C>T synonymous_variant 0.15
embC 4240281 p.Val140Ala missense_variant 0.12
embC 4240578 p.Ala239Glu missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243671 p.Gly147Ser missense_variant 0.12
embA 4244667 p.Val479Leu missense_variant 0.12
embA 4245136 p.Tyr635Phe missense_variant 0.17
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267766 c.1071G>A synonymous_variant 0.18
aftB 4268123 c.714T>C synonymous_variant 0.1
aftB 4268707 p.Gly44Cys missense_variant 0.4
aftB 4268803 p.Ala12Thr missense_variant 0.13
ethA 4326758 p.Arg239Leu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338652 c.-131A>G upstream_gene_variant 0.12
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