TB-Profiler result

Run: SRR21277755
Summary

Run ID: SRR21277755

Sample name:

Date: 04-04-2023 01:39:24

Number of reads: 8375066

Percentage reads mapped: 97.63

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 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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491308 p.Ala176Thr missense_variant 0.14
fgd1 491321 p.Ala180Val missense_variant 0.17
mshA 575276 c.-72C>A upstream_gene_variant 0.11
mshA 575830 c.483C>G synonymous_variant 0.14
mshA 575833 c.486C>G synonymous_variant 0.17
mshA 575845 c.498C>T synonymous_variant 0.15
mshA 575884 c.537G>C synonymous_variant 0.18
mshA 575887 c.540G>C synonymous_variant 0.25
mshA 575893 c.546C>G synonymous_variant 0.25
mshA 575896 c.549G>C synonymous_variant 0.25
mshA 575908 c.561A>G synonymous_variant 0.17
mshA 575917 p.Asp190Glu missense_variant 0.13
mshA 575920 c.573C>G synonymous_variant 0.12
mshA 575921 p.Asp192Tyr missense_variant 0.1
ccsA 619693 c.-198G>T upstream_gene_variant 0.12
ccsA 619712 c.-179G>T upstream_gene_variant 0.13
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoB 761194 p.Gly463Val missense_variant 0.1
rpoB 761207 c.1401C>T synonymous_variant 0.13
rpoB 762761 p.Cys985* stop_gained 0.14
rpoC 763966 c.597C>T synonymous_variant 1.0
rpoC 764593 c.1224C>T synonymous_variant 0.15
rpoC 765280 c.1911G>A synonymous_variant 0.12
rpoC 765553 c.2184C>T synonymous_variant 0.11
rpoC 766441 c.3072C>A synonymous_variant 0.15
rpoC 766984 c.3615G>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777279 p.Ala401Val missense_variant 0.12
mmpL5 777377 c.1104C>A synonymous_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 0.12
fbiC 1303134 c.204G>T synonymous_variant 0.11
fbiC 1303923 c.993C>A synonymous_variant 0.33
fbiC 1305429 c.2499G>A synonymous_variant 0.2
embR 1416484 c.864G>T synonymous_variant 0.11
embR 1416964 c.384C>T synonymous_variant 0.14
embR 1416985 c.363G>A synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674820 p.Leu207Ile missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918209 c.270C>A synonymous_variant 0.12
tlyA 1918547 p.Leu203* stop_gained 0.1
ndh 2102218 c.825C>A synonymous_variant 0.12
ndh 2102352 p.Arg231Trp missense_variant 0.14
katG 2155740 c.372C>T synonymous_variant 0.18
PPE35 2170032 p.Gly194Val missense_variant 0.12
PPE35 2170343 c.270C>T synonymous_variant 0.14
PPE35 2170505 c.108C>A synonymous_variant 0.12
PPE35 2170535 c.78G>A synonymous_variant 0.1
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518593 p.Ala160Asp missense_variant 0.11
kasA 2519173 c.1059C>G synonymous_variant 0.1
eis 2715000 c.333C>T synonymous_variant 0.13
folC 2746313 p.Arg429Leu missense_variant 0.13
folC 2746372 c.1227G>A synonymous_variant 0.15
folC 2746822 p.Glu259Asp missense_variant 0.1
folC 2747711 c.-113A>T upstream_gene_variant 0.11
pepQ 2859592 p.Ala276Val missense_variant 0.11
pepQ 2859942 c.477C>A synonymous_variant 0.25
pepQ 2860141 p.Gly93Val missense_variant 0.18
Rv2752c 3066302 c.-111C>A upstream_gene_variant 0.17
Rv2752c 3067006 c.-815A>T upstream_gene_variant 0.17
thyX 3067205 c.741G>T synonymous_variant 0.2
thyX 3068022 c.-77C>A upstream_gene_variant 0.12
thyA 3074520 c.-49G>T upstream_gene_variant 0.14
ald 3086736 c.-84C>A upstream_gene_variant 1.0
fbiD 3338936 c.-182T>A upstream_gene_variant 0.12
fbiD 3339556 p.Gly147Ser missense_variant 0.15
fbiD 3339747 c.630G>T synonymous_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474933 p.Glu309Asp missense_variant 0.25
fbiB 3641619 p.Leu29Met missense_variant 0.14
fbiB 3641877 c.343C>A synonymous_variant 0.18
fbiB 3642298 p.Gln255Leu missense_variant 0.33
fbiB 3642396 p.Ala288Ser missense_variant 0.11
fbiB 3642633 p.Asp367Asn missense_variant 0.12
fbiB 3642699 p.Ala389Ser missense_variant 0.33
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 0.97
clpC1 4040228 c.477G>T synonymous_variant 0.15
embC 4241693 p.Ala611Ser missense_variant 0.17
embC 4242366 p.Ser835Tyr missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243813 p.Arg194Gln missense_variant 1.0
embA 4244213 c.981C>A synonymous_variant 0.12
embA 4244344 p.Ala371Val missense_variant 0.1
embB 4247032 c.519C>A synonymous_variant 0.12
embB 4247626 c.1113C>A synonymous_variant 0.12
embB 4248590 p.Ala693Thr missense_variant 0.1
embB 4249355 p.Val948Leu missense_variant 0.14
embB 4249528 c.3015C>T synonymous_variant 0.99
aftB 4267960 p.Val293Met missense_variant 0.11
aftB 4268873 c.-37C>A upstream_gene_variant 0.11
aftB 4269741 c.-905G>A upstream_gene_variant 0.14
ethA 4327599 c.-126G>T upstream_gene_variant 0.12
ethA 4328023 c.-550G>T upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0