TB-Profiler result

Run: SRR4035532
Summary

Run ID: SRR4035532

Sample name:

Date: 04-04-2023 07:09:26

Number of reads: 876759

Percentage reads mapped: 99.68

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 0.99
lineage4.4.1 Euro-American (S-type) S;T None 1.0
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 5748 p.Thr170Met missense_variant 0.13
gyrB 5989 c.750C>A synonymous_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7894 p.Ala198Val missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576236 p.Val297Met missense_variant 0.13
ccsA 619973 c.94_96delCTG conservative_inframe_deletion 0.17
rpoB 761214 p.His470Tyr missense_variant 0.11
rpoC 766030 c.2661C>A synonymous_variant 0.12
rpoC 766840 c.3471C>T synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778950 c.-470C>T upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304717 p.Ala596Val missense_variant 0.13
fbiC 1304865 p.Ser645Arg missense_variant 0.12
fbiC 1305314 p.Arg795His missense_variant 0.13
embR 1416737 p.Arg204Leu missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475284 n.1627C>T non_coding_transcript_exon_variant 0.12
rrl 1475428 n.1771G>A non_coding_transcript_exon_variant 0.12
fabG1 1673273 c.-167C>A upstream_gene_variant 0.15
inhA 1673451 c.-751A>G upstream_gene_variant 0.12
inhA 1674952 p.Pro251Ala missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102821 c.222C>A synonymous_variant 0.2
ndh 2102990 p.Val18Ala missense_variant 1.0
ndh 2103120 c.-78C>A upstream_gene_variant 0.13
katG 2156485 c.-375delA upstream_gene_variant 0.11
katG 2156519 c.-408T>C upstream_gene_variant 0.13
PPE35 2169320 p.Leu431Phe missense_variant 0.29
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289612 c.-371A>G upstream_gene_variant 0.15
pepQ 2859588 c.831G>T synonymous_variant 0.15
ribD 2987281 p.Val148Asp missense_variant 0.17
thyA 3074051 c.420dupG frameshift_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475214 p.Ala403Gly missense_variant 0.1
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
alr 3840494 c.927G>A synonymous_variant 0.11
alr 3840526 c.893_894delCA frameshift_variant 0.13
alr 3841425 c.-5G>T upstream_gene_variant 0.13
clpC1 4038785 p.Gln640His missense_variant 0.11
clpC1 4039958 c.747G>A synonymous_variant 0.12
embC 4241427 c.1566delG frameshift_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243626 p.Ala132Thr missense_variant 0.11
ubiA 4269268 c.565delG frameshift_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0