TB-Profiler result

Run: SRR4034111
Summary

Run ID: SRR4034111

Sample name:

Date: 04-04-2023 06:35:22

Number of reads: 539910

Percentage reads mapped: 99.53

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 5874 p.Arg212Met missense_variant 0.12
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 619831 c.-60T>G upstream_gene_variant 0.33
ccsA 620215 p.Asn109Tyr missense_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763449 p.Glu27Val missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.89
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781681 p.Thr41Ile missense_variant 0.22
fbiC 1304858 p.Thr643Asn missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474221 n.564T>C non_coding_transcript_exon_variant 0.13
inhA 1673712 c.-490A>G upstream_gene_variant 0.29
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834671 p.Lys377Arg missense_variant 0.13
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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289533 c.-292A>T upstream_gene_variant 0.18
ahpC 2726338 p.Val49Gly missense_variant 0.29
Rv2752c 3065501 p.Gly231Arg missense_variant 0.22
thyA 3073806 c.666C>G synonymous_variant 0.25
thyA 3074399 p.Gly25Arg missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.33
Rv3083 3449877 p.His458Gln missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.89
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4039070 c.1635G>A synonymous_variant 0.18
clpC1 4039392 p.Ala438Val missense_variant 0.2
clpC1 4040101 p.Gln202Lys missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4247375 p.Leu288Met missense_variant 0.17
embB 4249361 p.Ala950Thr missense_variant 0.21
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269238 p.Ala199Val missense_variant 0.15
ubiA 4269864 c.-34_-32delGGG upstream_gene_variant 0.17
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