TB-Profiler result

Run: SRR4035565
Summary

Run ID: SRR4035565

Sample name:

Date: 04-04-2023 07:10:50

Number of reads: 1077369

Percentage reads mapped: 99.7

Strain: lineage4.4.1.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 0.99
lineage4.4.1.1 Euro-American S;Orphans None 1.0
lineage4.4.1.1.1 Euro-American S;Orphans 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
gyrB 7161 p.Ala641Asp missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9648 p.Val783Leu missense_variant 0.17
mshA 575320 c.-28C>G upstream_gene_variant 0.12
ccsA 619708 c.-183G>A upstream_gene_variant 0.18
ccsA 620830 p.Thr314Ala missense_variant 0.14
rpoB 759744 c.-63G>T upstream_gene_variant 0.12
rpoB 760773 p.Thr323Ala missense_variant 0.14
rpoB 761256 p.Glu484Lys missense_variant 0.13
rpoB 761286 p.Leu494Met missense_variant 0.13
rpoC 766153 c.2784C>T synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777027 p.Thr485Ile missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303447 p.Tyr173Asn missense_variant 0.13
Rv1258c 1407351 c.-11C>G upstream_gene_variant 0.11
embR 1416254 p.Asp365Gly missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859590 p.Ala277Ser missense_variant 0.15
pepQ 2860146 c.273C>G synonymous_variant 0.15
ribD 2987347 p.Pro170Leu missense_variant 0.14
Rv2752c 3064636 p.Val519Ala missense_variant 0.1
Rv2752c 3065304 c.888G>A synonymous_variant 0.2
Rv2752c 3067152 c.-961G>A upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087048 p.Pro77Ser missense_variant 0.12
ald 3087210 c.395delC frameshift_variant 0.11
fbiD 3339675 c.558C>T synonymous_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
Rv3236c 3612859 c.258G>T synonymous_variant 0.15
rpoA 3878641 c.-134C>G upstream_gene_variant 0.2
ddn 3987069 p.Ala76Thr missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243277 c.45A>G synonymous_variant 0.12
aftB 4267955 c.882G>A synonymous_variant 0.18
ethA 4326318 p.Tyr386His missense_variant 0.11
ethA 4327620 c.-147A>G upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407795 c.408A>T synonymous_variant 0.13