TB-Profiler result

Run: ERR4814642
Summary

Run ID: ERR4814642

Sample name:

Date: 01-04-2023 13:24:38

Number of reads: 737721

Percentage reads mapped: 99.31

Strain: lineage1.2.2.2

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.2.2 Indo-Oceanic EAI1 RD239 1.0
lineage1.2.2.2 Indo-Oceanic NA RD239 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 5075 c.-165C>T upstream_gene_variant 1.0
gyrB 5530 c.291C>T synonymous_variant 1.0
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7807 p.Arg169Gln missense_variant 0.12
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 8582 c.1281C>A synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491301 p.Tyr173* stop_gained 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575964 p.Val206Ala missense_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.33
mshA 576613 c.1266A>C synonymous_variant 0.18
ccsA 619765 c.-126G>A upstream_gene_variant 0.2
ccsA 620586 c.696C>T synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765889 c.2520C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775756 p.Thr909Ala missense_variant 0.12
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777155 c.1326G>C synonymous_variant 1.0
mmpS5 779499 c.-594C>T upstream_gene_variant 0.12
mmpS5 779560 c.-655C>T upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800951 p.Ser48Asn missense_variant 0.11
fbiC 1302948 c.18T>G synonymous_variant 1.0
fbiC 1304506 p.Glu526* stop_gained 0.12
Rv1258c 1406493 p.Ile283Ser missense_variant 1.0
embR 1416234 p.Cys372Arg missense_variant 0.15
embR 1416743 p.Pro202His missense_variant 0.14
embR 1417019 p.Cys110Tyr missense_variant 1.0
embR 1417448 c.-101G>T upstream_gene_variant 0.25
embR 1417480 c.-133G>T upstream_gene_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101842 p.Leu401Met missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168073 p.Pro847Leu missense_variant 0.22
PPE35 2168742 p.Gly624Asp missense_variant 1.0
PPE35 2169056 c.1557A>T synonymous_variant 0.4
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
eis 2715056 p.Arg93Trp missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
Rv2752c 3064889 p.Lys435Glu missense_variant 1.0
Rv2752c 3066103 p.Asn30Ser missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087078 p.His87Tyr missense_variant 0.11
ald 3087200 c.385delC frameshift_variant 0.14
ald 3087542 c.723G>T synonymous_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
Rv3083 3449695 p.Lys398Glu missense_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568449 c.231G>A synonymous_variant 0.22
fbiB 3642806 c.1272C>T synonymous_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 1.0
ddn 3986760 c.-84G>A upstream_gene_variant 0.18
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4246850 p.Ala113Thr missense_variant 0.12
embB 4247444 p.Asp311Asn missense_variant 0.14
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267303 p.Asn512Asp missense_variant 0.11
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326439 p.Asn345Lys missense_variant 1.0
ethR 4326961 c.-588G>C upstream_gene_variant 0.14
ethR 4326964 c.-585G>A upstream_gene_variant 0.13
ethR 4326970 c.-579G>T upstream_gene_variant 0.13
ethA 4327528 c.-55C>T upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
whiB6 4338613 c.-92G>T upstream_gene_variant 0.15
whiB6 4338635 c.-114A>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
gid 4408050 p.Asn51Lys missense_variant 1.0