TB-Profiler result

Run: SRR19416144
Summary

Run ID: SRR19416144

Sample name:

Date: 03-04-2023 21:37:43

Number of reads: 2000978

Percentage reads mapped: 99.23

Strain: lineage1

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
lineage1 Indo-Oceanic EAI RD239 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 5075 c.-165C>T upstream_gene_variant 1.0
gyrB 5630 c.391C>T synonymous_variant 1.0
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7268 c.-34C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490649 c.-134C>A upstream_gene_variant 0.18
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575237 c.-111C>G upstream_gene_variant 0.15
mshA 575320 c.-28C>A upstream_gene_variant 0.22
mshA 575397 p.Arg17Leu missense_variant 0.33
mshA 575509 c.162C>A synonymous_variant 0.14
mshA 576463 c.1116G>T synonymous_variant 1.0
ccsA 619858 c.-33C>A upstream_gene_variant 0.25
rpoB 761504 c.1698C>A synonymous_variant 0.13
rpoB 761690 c.1884G>A synonymous_variant 0.33
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 766966 p.Glu1199Asp missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 779316 c.-836C>A upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102221 p.Lys274Asp missense_variant 0.12
ndh 2102240 p.Arg268His missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168742 p.Gly624Asp missense_variant 1.0
PPE35 2170530 p.Ala28Glu missense_variant 0.15
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.99
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
folC 2746594 c.1005T>C synonymous_variant 0.25
ribD 2987286 p.Asp150Asn missense_variant 0.25
ribD 2987419 p.Gly194Val missense_variant 0.18
thyX 3067952 c.-7G>T upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087601 p.Gly261Val missense_variant 1.0
fbiD 3339389 p.Pro91Gln missense_variant 0.14
Rv3083 3448714 p.Asp71His missense_variant 1.0
Rv3083 3448961 c.462delC frameshift_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475021 p.Gly339Arg missense_variant 0.2
fprA 3475159 p.Asn385Asp missense_variant 1.0
fbiA 3641459 p.Val306Glu missense_variant 0.12
fbiA 3641524 p.Gly328* stop_gained 0.12
fbiB 3642104 c.570C>A synonymous_variant 0.2
fbiB 3642400 p.Pro289Gln missense_variant 0.13
clpC1 4040517 p.Val63Ala missense_variant 1.0
clpC1 4040719 c.-15A>G upstream_gene_variant 1.0
embC 4240421 p.Glu187* stop_gained 0.12
embC 4240639 c.777C>T synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4242217 p.Phe785Leu missense_variant 0.22
embA 4242304 c.-929G>T upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243886 p.Met218Ile missense_variant 0.2
embA 4244172 p.Leu314Met missense_variant 0.11
embA 4244183 c.951G>T synonymous_variant 0.13
embA 4245557 p.Glu775Asp missense_variant 0.14
embA 4245882 p.Gly884Arg missense_variant 0.15
embA 4245969 p.Pro913Ser missense_variant 1.0
aftB 4267463 c.1374C>T synonymous_variant 1.0
aftB 4267708 p.Gly377Trp missense_variant 0.12
aftB 4268364 p.Trp158Leu missense_variant 0.14
aftB 4268848 c.-12C>G upstream_gene_variant 0.1
ubiA 4269387 p.Glu149Asp missense_variant 0.99
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326148 c.1326G>T synonymous_variant 0.99
ethA 4326439 p.Asn345Lys missense_variant 1.0
whiB6 4338203 p.Arg107Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407848 p.Ala119Thr missense_variant 0.99
gid 4407873 c.330G>T synonymous_variant 0.99