TB-Profiler result

Run: SRR11972320
Summary

Run ID: SRR11972320

Sample name:

Date: 03-04-2023 05:36:57

Number of reads: 1522820

Percentage reads mapped: 98.42

Strain: lineage4.5

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.5 Euro-American H;T RD122 0.99
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 7892 c.591G>A synonymous_variant 1.0
gyrA 8750 c.1449C>G synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9534 p.Arg745Ser missense_variant 0.15
fgd1 490805 p.Tyr8Cys missense_variant 0.12
fgd1 490942 p.Ser54Pro missense_variant 0.12
mshA 576030 p.His228Leu missense_variant 0.12
mshA 576479 p.Pro378Ala missense_variant 0.18
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoB 760872 p.Glu356Lys missense_variant 0.12
rpoC 766484 p.Val1039Ile missense_variant 0.13
mmpL5 775635 p.Pro949Leu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776314 p.Glu723* stop_gained 0.14
mmpR5 779181 c.198delG frameshift_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304420 p.Ala497Val missense_variant 0.18
Rv1258c 1406261 c.1080C>T synonymous_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.21
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.13
rrl 1475124 n.1467A>C non_coding_transcript_exon_variant 0.11
rpsA 1834277 p.Asp246Asn missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102333 p.Gln237Leu missense_variant 0.12
katG 2153970 p.Asp714Glu missense_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.18
PPE35 2170053 p.Thr187Ser missense_variant 0.15
PPE35 2170392 p.Gly74Ala missense_variant 0.14
PPE35 2170400 c.213G>C synonymous_variant 0.12
PPE35 2170568 p.Ile15Met missense_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289510 c.-269G>A upstream_gene_variant 0.12
eis 2714872 p.Pro154Leu missense_variant 0.12
folC 2746191 c.1407delC frameshift_variant 0.22
folC 2746775 p.Gln275Leu missense_variant 0.12
pepQ 2859969 c.450C>G synonymous_variant 1.0
ribD 2986840 c.2T>C start_lost 0.12
ribD 2986908 p.Thr24Ser missense_variant 0.12
Rv3083 3448711 p.Arg70Cys missense_variant 0.14
Rv3083 3448987 p.Arg162Trp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474528 c.522A>G synonymous_variant 0.1
fprA 3474842 p.Lys279Arg missense_variant 0.11
Rv3236c 3612113 c.1003delG frameshift_variant 0.29
alr 3841049 c.372G>A synonymous_variant 0.13
rpoA 3877575 c.933C>T synonymous_variant 0.25
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
clpC1 4038908 c.1797C>A synonymous_variant 1.0
panD 4043888 c.394C>T synonymous_variant 0.13
panD 4044428 c.-147G>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243453 c.225delC frameshift_variant 0.12
embA 4243478 c.246G>A synonymous_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.48
embB 4246548 p.Pro12Gln missense_variant 0.28
embB 4246555 c.42G>C synonymous_variant 0.24
embB 4246556 p.Ala15Pro missense_variant 0.24
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246567 c.54G>T synonymous_variant 0.12
embB 4247677 c.1164C>T synonymous_variant 0.12
aftB 4269516 c.-680G>T upstream_gene_variant 0.17
aftB 4269561 c.-725G>A upstream_gene_variant 0.13
ubiA 4269932 c.-100delC upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407704 p.Ala167Thr missense_variant 0.13
gid 4408304 c.-102G>A upstream_gene_variant 0.14