TB-Profiler result

Run: SRR18391655
Summary

Run ID: SRR18391655

Sample name:

Date: 03-04-2023 19:38:50

Number of reads: 141150

Percentage reads mapped: 47.52

Strain:

Drug-resistance: Other

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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
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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8082 p.Glu261Lys missense_variant 0.13
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9217 p.Asp639Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619768 c.-123G>A upstream_gene_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764605 c.1236G>A synonymous_variant 0.2
rpoC 765744 p.His792Arg missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 778514 p.Val131Glu missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.27
inhA 1674808 p.Val203Ile missense_variant 0.25
rpsA 1834750 p.Trp403Cys missense_variant 0.29
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918237 c.298C>T synonymous_variant 0.18
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154161 p.Glu651Lys missense_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168319 p.Thr765Ile missense_variant 1.0
PPE35 2168443 c.2169delG frameshift_variant 0.15
PPE35 2168814 c.1798dupA frameshift_variant 1.0
PPE35 2169725 c.888T>C synonymous_variant 0.17
PPE35 2169732 p.Asn294Ser missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.43
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519005 c.891G>C synonymous_variant 0.33
thyX 3067716 p.Ser77Asn missense_variant 0.25
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474032 p.Val9Ala missense_variant 0.29
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568877 c.-198C>T upstream_gene_variant 0.29
Rv3236c 3613000 c.117G>A synonymous_variant 0.4
fbiA 3640636 p.Ser32Pro missense_variant 1.0
fbiB 3642116 c.582C>T synonymous_variant 0.25
fbiB 3642231 p.Leu233Met missense_variant 0.4
fbiB 3642478 p.Asp315Ala missense_variant 1.0
rpoA 3878023 p.Ile162Thr missense_variant 0.4
clpC1 4038403 c.2302T>C synonymous_variant 1.0
clpC1 4040241 p.Thr155Ile missense_variant 0.5
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240981 c.1119G>A synonymous_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4243236 p.Pro2Ser missense_variant 0.33
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4245516 p.Gly762Arg missense_variant 0.22
embA 4246505 p.Arg1091Ser missense_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4268469 c.366_367dupGC frameshift_variant 0.4
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269903 c.-70C>T upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407835 p.Trp123Leu missense_variant 0.22