TB-Profiler result

Run: SRR21277764

Summary

Run ID: SRR21277764

Sample name:

Date: 04-04-2023 01:40:35

Number of reads: 14527240

Percentage reads mapped: 97.84

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 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575400 p.Pro18Gln missense_variant 0.12
mshA 576244 c.897C>T synonymous_variant 0.15
mshA 576623 p.Ala426Ser missense_variant 0.11
ccsA 619700 c.-191C>A upstream_gene_variant 0.11
ccsA 619704 c.-187G>A upstream_gene_variant 0.17
rpoC 764545 c.1176C>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303107 p.Cys59* stop_gained 0.15
fbiC 1303686 c.756C>T synonymous_variant 1.0
fbiC 1304467 p.Glu513* stop_gained 0.11
fbiC 1305455 p.Arg842His missense_variant 0.11
Rv1258c 1407160 p.Val61Ile missense_variant 0.12
Rv1258c 1407531 c.-191C>T upstream_gene_variant 0.13
embR 1416975 p.Ala125Thr missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834875 p.Ala445Val missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918098 c.159C>T synonymous_variant 0.11
tlyA 1918566 c.627C>A synonymous_variant 0.27
tlyA 1918588 p.Glu217* stop_gained 0.14
PPE35 2170034 c.579G>T synonymous_variant 0.11
PPE35 2170354 p.Ala87Ser missense_variant 0.12
PPE35 2170413 p.Ala67Glu missense_variant 0.2
PPE35 2170444 p.Trp57Arg missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518757 p.Ala215Pro missense_variant 0.12
eis 2715055 p.Arg93Gln missense_variant 0.25
eis 2715059 p.Arg92Ser missense_variant 0.13
eis 2715063 c.270G>A synonymous_variant 0.1
folC 2746582 p.Leu339Phe missense_variant 0.16
folC 2747461 c.138C>T synonymous_variant 1.0
folC 2747796 c.-198C>A upstream_gene_variant 0.13
pepQ 2859602 p.Val273Leu missense_variant 0.1
pepQ 2859611 p.Leu270Met missense_variant 0.11
pepQ 2859926 p.Pro165Ser missense_variant 0.12
pepQ 2859941 p.Arg160Ser missense_variant 0.11
ribD 2987347 p.Pro170Leu missense_variant 0.11
ribD 2987365 p.Ala176Val missense_variant 0.11
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
thyX 3067226 p.Glu240Asp missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339319 p.Ala68Thr missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475306 p.Gly434Ser missense_variant 0.12
fprA 3475315 p.His437Asn missense_variant 0.17
fbiB 3642029 c.495C>T synonymous_variant 0.18
alr 3841029 p.Ala131Val missense_variant 0.19
clpC1 4038188 p.Ser839Arg missense_variant 0.1
panD 4044478 c.-197G>T upstream_gene_variant 0.11
embC 4240624 c.762C>T synonymous_variant 0.12
embC 4242368 p.Arg836Ser missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242644 p.Asn928Tyr missense_variant 0.25
embA 4243621 p.Thr130Met missense_variant 0.15
embA 4244306 c.1074G>T synonymous_variant 0.12
embB 4246508 c.-6G>A upstream_gene_variant 1.0
embB 4246797 p.Gly95Val missense_variant 0.14
embB 4247110 c.597G>T synonymous_variant 0.14
embB 4247641 c.1128G>T synonymous_variant 0.12
aftB 4267925 c.912G>T synonymous_variant 0.1
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
ethR 4328033 p.Ala162Glu missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0