TB-Profiler result

Run: SRR21735254
Summary

Run ID: SRR21735254

Sample name:

Date: 04-04-2023 03:22:49

Number of reads: 827235

Percentage reads mapped: 99.33

Strain: lineage4.1.2.1

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 5602 c.363C>T synonymous_variant 0.22
gyrB 5845 p.Lys202Asn missense_variant 0.13
gyrA 7362 p.Glu21Arg missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8628 c.1327C>T synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491542 c.760T>C synonymous_variant 0.11
fgd1 491570 p.Asp263Gly missense_variant 0.11
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575279 c.-69C>T upstream_gene_variant 0.11
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 619818 c.-73G>A upstream_gene_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761319 p.Phe505Leu missense_variant 0.15
rpoB 762612 p.Ser936Gly missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766365 p.Ala999Val missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777439 p.Ala348Thr missense_variant 0.11
mmpL5 777979 p.Ala168Ser missense_variant 1.0
mmpL5 778045 p.Ala146Thr missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801440 p.Ala211Val missense_variant 0.12
fbiC 1304278 p.Gly450Ser missense_variant 0.11
Rv1258c 1406406 p.Pro312Leu missense_variant 0.12
embR 1416457 c.891G>A synonymous_variant 0.12
embR 1417037 p.Ser104Asn missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.18
rrs 1472191 n.346G>C non_coding_transcript_exon_variant 0.22
rrl 1474489 n.832T>G non_coding_transcript_exon_variant 0.13
rpsA 1833732 p.Pro64His missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918367 p.Ala143Val missense_variant 0.12
ndh 2102343 p.Ala234Thr missense_variant 0.12
ndh 2103001 c.42G>A synonymous_variant 0.11
ndh 2103225 c.-183A>C upstream_gene_variant 0.25
PPE35 2168897 c.1716T>A synonymous_variant 0.18
PPE35 2169600 p.Asn338Ile missense_variant 0.11
PPE35 2169729 p.Asn295Ser missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289062 c.180C>G synonymous_variant 0.29
pncA 2290207 c.-966G>A upstream_gene_variant 0.12
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518635 p.Gly174Asp missense_variant 0.13
kasA 2519023 c.909G>A synonymous_variant 0.11
folC 2746677 p.Ser308Pro missense_variant 0.11
folC 2747108 p.Ala164Val missense_variant 0.17
pepQ 2859726 c.693C>T synonymous_variant 0.18
Rv2752c 3066196 c.-5C>A upstream_gene_variant 0.1
thyX 3067321 c.625C>A synonymous_variant 0.29
thyA 3074025 p.Phe149Leu missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338993 c.-125C>T upstream_gene_variant 0.11
fprA 3473998 c.-9G>A upstream_gene_variant 1.0
fprA 3473998 c.-10_-9insA upstream_gene_variant 1.0
whiB7 3568871 c.-192C>T upstream_gene_variant 0.2
fbiA 3641213 p.Leu224Pro missense_variant 0.18
fbiB 3642221 c.687C>G synonymous_variant 0.12
clpC1 4038507 p.Leu733Pro missense_variant 0.1
clpC1 4038582 p.Glu708Val missense_variant 0.15
panD 4044307 c.-26A>G upstream_gene_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243313 c.81G>A synonymous_variant 0.12
embA 4243829 c.597C>T synonymous_variant 0.33
embA 4244576 c.1344G>A synonymous_variant 0.14
embB 4248216 p.Arg568His missense_variant 0.18
embB 4248393 p.Ala627Val missense_variant 0.13
embB 4248481 c.1968C>T synonymous_variant 0.1
ubiA 4270019 c.-186A>C upstream_gene_variant 0.11
ethA 4327003 p.Phe157Leu missense_variant 0.12
ethR 4327072 c.-477G>T upstream_gene_variant 0.11
ethR 4327864 p.Gly106Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338712 c.-191T>C upstream_gene_variant 0.1