TB-Profiler result

Run: SRR6982533
Summary

Run ID: SRR6982533

Sample name:

Date: 04-04-2023 18:40:24

Number of reads: 586362

Percentage reads mapped: 98.52

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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.98
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.97
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 7845 p.Ala182Thr missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491653 p.Asp291Tyr missense_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 0.89
ccsA 620449 p.Leu187Met missense_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
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 777270 p.Gly404Val missense_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801346 p.Leu180Ile missense_variant 0.1
fbiC 1303538 p.Arg203Leu missense_variant 0.14
Rv1258c 1406755 p.Ala196Thr missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416989 c.358delA frameshift_variant 0.12
atpE 1461236 c.194delT frameshift_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473747 n.90C>T non_coding_transcript_exon_variant 0.11
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.13
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.22
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.24
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.13
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.13
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.13
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.12
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.12
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.13
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.13
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.12
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.13
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.29
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.4
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.17
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.5
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.4
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.4
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.44
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.18
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.18
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.2
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.11
inhA 1673538 c.-664G>A upstream_gene_variant 0.11
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169760 p.Gly285Cys missense_variant 0.18
PPE35 2170547 c.66A>G synonymous_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290110 c.-869C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086904 c.87_88delTG frameshift_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475223 p.Val406Gly missense_variant 0.14
whiB7 3568800 c.-121C>A upstream_gene_variant 0.14
Rv3236c 3612274 c.843G>T synonymous_variant 0.14
Rv3236c 3612813 p.Thr102Ala missense_variant 0.9
fbiB 3641890 p.Ala119Val missense_variant 0.11
fbiB 3642130 p.Ala199Asp missense_variant 0.17
embC 4242209 p.Glu783Lys missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243669 p.Gly146Asp missense_variant 0.15
embA 4243868 c.636G>T synonymous_variant 0.12
embA 4243942 p.Leu237Pro missense_variant 0.11
embA 4244184 p.Ser318Cys missense_variant 0.12
embB 4246481 c.-33C>A upstream_gene_variant 0.18
embB 4246567 c.54G>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4270005 c.-172C>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.98
gid 4407927 p.Glu92Asp missense_variant 1.0