TB-Profiler result

Run: SRR11972344
Summary

Run ID: SRR11972344

Sample name:

Date: 03-04-2023 05:37:52

Number of reads: 1402330

Percentage reads mapped: 99.05

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 8519 c.1218A>G synonymous_variant 0.11
gyrA 8838 p.Arg513Cys missense_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9621 c.2320C>T synonymous_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575472 p.Asp42Val missense_variant 0.17
mshA 575841 p.Ala165Gly missense_variant 0.18
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 765365 p.Thr666Ala missense_variant 0.29
rpoC 767202 p.Ala1278Val missense_variant 0.22
rpoC 767305 c.3936C>T synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775800 p.Ser894* stop_gained 0.13
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 778330 p.Pro51Ser missense_variant 0.12
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781692 p.Pro45Ser missense_variant 0.13
fbiC 1304617 c.1689delG frameshift_variant 0.12
fbiC 1305220 p.Arg764Cys missense_variant 0.13
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474905 n.1248T>A non_coding_transcript_exon_variant 0.12
rrl 1474969 n.1312G>A non_coding_transcript_exon_variant 0.17
rrl 1475084 n.1427G>A non_coding_transcript_exon_variant 0.13
rpsA 1833374 c.-168C>G upstream_gene_variant 0.1
rpsA 1833785 p.Val82Ile missense_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102263 c.780G>A synonymous_variant 0.13
katG 2153970 p.Asp714Glu missense_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169103 p.Pro504Ser missense_variant 0.14
PPE35 2170147 p.Ser156Ala missense_variant 0.1
Rv1979c 2223146 p.Arg7Gly missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.93
pncA 2289792 c.-551A>G upstream_gene_variant 0.12
eis 2714264 p.Gly357Cys missense_variant 0.2
eis 2714684 c.649T>C synonymous_variant 1.0
folC 2746640 p.Gln320Arg missense_variant 0.4
folC 2747052 p.Ala183Thr missense_variant 0.25
folC 2747177 p.Ser141Phe missense_variant 0.12
folC 2747189 p.Gln137Arg missense_variant 0.11
pepQ 2859374 p.Pro349Ser missense_variant 0.12
ribD 2987062 p.Arg75His missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087348 p.Gly177Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642243 p.Ala237Thr missense_variant 0.2
fbiB 3642749 c.1215T>C synonymous_variant 0.2
ddn 3987047 c.204C>T synonymous_variant 1.0
clpC1 4038349 p.Ser786Pro missense_variant 0.1
clpC1 4039612 p.Arg365Gly missense_variant 0.15
clpC1 4040057 c.648C>T synonymous_variant 0.43
panD 4044356 c.-75T>C upstream_gene_variant 0.12
embC 4239883 c.25dupC frameshift_variant 0.12
embC 4241216 p.Ala452Thr missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244504 c.1272G>A synonymous_variant 1.0
embA 4245915 p.Gln895* stop_gained 0.12
embA 4246284 p.Ser1018Thr missense_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.32
embB 4246548 p.Pro12Gln missense_variant 0.28
embB 4246555 c.42G>C synonymous_variant 0.19
embB 4246556 p.Ala15Pro missense_variant 0.19
embB 4247686 c.1173G>A synonymous_variant 0.2
embB 4249194 p.Pro894Arg missense_variant 0.11
aftB 4267439 c.1398C>T synonymous_variant 0.12
aftB 4267460 c.1377G>A synonymous_variant 0.13
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267782 c.1054delG frameshift_variant 0.18
ubiA 4269368 p.Ala156Thr missense_variant 0.17
ethR 4326763 c.-786C>A upstream_gene_variant 0.14
ethR 4327898 p.His117Arg missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0