TB-Profiler result

Run: SRR2100071
Summary

Run ID: SRR2100071

Sample name:

Date: 03-04-2023 22:44:21

Number of reads: 6556262

Percentage reads mapped: 99.38

Strain: lineage4.1.1

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 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 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 9304 p.Gly668Asp missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.19
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 767305 p.Tyr1312* stop_gained 0.27
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406750 c.591C>A synonymous_variant 0.19
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.24
inhA 1674892 p.Asn231Asp missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167871 c.2742G>C synonymous_variant 0.19
PPE35 2168034 p.Thr860Ile missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.34
PPE35 2170156 p.Ala153Pro missense_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.3
folC 2746186 c.1413G>C synonymous_variant 0.22
pepQ 2859381 c.1038C>G synonymous_variant 0.19
Rv2752c 3064552 p.Arg547Pro missense_variant 0.25
Rv2752c 3065618 p.Gly192Arg missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.29
fbiB 3641238 c.-297G>A upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.16
fbiB 3642512 p.Leu326Phe missense_variant 0.19
fbiB 3642734 c.1200G>C synonymous_variant 0.14
fbiB 3642772 p.Asp413Ala missense_variant 0.15
rpoA 3877553 p.Glu319Lys missense_variant 0.99
rpoA 3878238 p.Asp90Glu missense_variant 0.17
rpoA 3878559 c.-53_-52insC upstream_gene_variant 0.18
rpoA 3878601 c.-95delG upstream_gene_variant 0.21
rpoA 3878641 c.-135delG upstream_gene_variant 0.17
clpC1 4038857 c.1848C>A synonymous_variant 0.16
clpC1 4039363 p.Ala448Pro missense_variant 0.25
clpC1 4039932 p.Gly258Val missense_variant 0.25
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4241456 p.Ala532Pro missense_variant 0.28
embC 4242476 p.Pro872Ala missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.38
embA 4243977 p.Ala249Pro missense_variant 0.2
embB 4246746 p.Asp78Gly missense_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.25
embB 4249408 c.2895G>A synonymous_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.2
ethA 4327672 c.-199G>A upstream_gene_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0