TB-Profiler result

Run: SRR21277761
Summary

Run ID: SRR21277761

Sample name:

Date: 04-04-2023 01:40:06

Number of reads: 9196423

Percentage reads mapped: 99.16

Strain: lineage4.4.2

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
lineage4.4.2 Euro-American T1;T2 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 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575278 c.-70C>A upstream_gene_variant 0.11
mshA 575299 c.-49G>C upstream_gene_variant 0.11
mshA 575906 p.Ala187Thr missense_variant 1.0
mshA 576434 p.Gln363Lys missense_variant 0.25
rpoB 761658 p.Pro618Thr missense_variant 0.11
rpoC 766969 c.3600C>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303122 c.192G>T synonymous_variant 0.17
fbiC 1304404 p.Asp492Asn missense_variant 0.13
fbiC 1304461 p.Asp511Tyr missense_variant 0.18
fbiC 1304467 p.Glu513* stop_gained 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674838 p.Ala213Ser missense_variant 0.12
tlyA 1917850 c.-90C>G upstream_gene_variant 1.0
tlyA 1917970 p.Leu11Met missense_variant 0.11
tlyA 1918568 p.Ala210Glu missense_variant 0.14
tlyA 1918596 c.657C>T synonymous_variant 0.14
katG 2155767 c.345C>A synonymous_variant 0.12
PPE35 2170478 p.Phe45Leu missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519165 p.Gly351Cys missense_variant 0.1
eis 2714907 c.426C>A synonymous_variant 0.17
eis 2715559 c.-227G>T upstream_gene_variant 0.15
folC 2746348 c.1251G>A synonymous_variant 0.15
folC 2747789 c.-191G>A upstream_gene_variant 0.15
pepQ 2859605 p.Gly272Trp missense_variant 0.18
pepQ 2860583 c.-165G>T upstream_gene_variant 0.14
pepQ 2860589 c.-171G>T upstream_gene_variant 0.25
Rv2752c 3066099 p.Met31Ile missense_variant 0.99
thyX 3067214 c.732C>T synonymous_variant 0.11
thyX 3067859 c.87C>T synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339739 p.Ala208Ser missense_variant 0.22
fbiD 3339747 c.630G>T synonymous_variant 0.12
Rv3083 3448727 p.Leu75Arg missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474989 p.Pro328Leu missense_variant 0.11
fprA 3475304 p.Ala433Asp missense_variant 0.13
whiB7 3568505 p.Arg59Gly missense_variant 1.0
fbiB 3642164 c.630C>A synonymous_variant 0.14
fbiB 3642242 c.708C>T synonymous_variant 0.15
clpC1 4039058 p.Phe549Leu missense_variant 1.0
clpC1 4040243 c.462C>T synonymous_variant 0.1
embC 4240603 c.741G>A synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243961 c.729G>T synonymous_variant 0.11
embA 4243991 c.759T>G synonymous_variant 1.0
embA 4244301 p.Asn357Tyr missense_variant 0.17
embB 4246508 c.-6G>A upstream_gene_variant 1.0
embB 4246799 p.Gly96Trp missense_variant 0.11
embB 4247029 c.516G>A synonymous_variant 0.14
embB 4247115 p.Ala201Val missense_variant 0.2
embB 4247146 c.633C>A synonymous_variant 1.0
embB 4247869 c.1356G>A synonymous_variant 0.12
aftB 4267679 c.1158G>A synonymous_variant 0.12
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338261 c.261G>T synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0