TB-Profiler result

Run: SRR12199458
Summary

Run ID: SRR12199458

Sample name:

Date: 03-04-2023 06:41:42

Number of reads: 186658

Percentage reads mapped: 73.91

Strain:

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
lineage1.1.3 Indo-Oceanic EAI6 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 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
fgd1 491540 p.Ser253Leu missense_variant 0.5
rpoB 762311 p.His835Gln missense_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763252 p.Leu1149Gln missense_variant 0.2
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_variant 1.0
rpoC 765230 p.Ala621Thr missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776993 c.1488A>G synonymous_variant 0.33
mmpL5 776996 c.1485C>G synonymous_variant 0.33
mmpL5 777572 c.909C>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302983 p.Pro18Leu missense_variant 0.67
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471830 n.-16A>T upstream_gene_variant 0.15
rrl 1474478 n.821C>A non_coding_transcript_exon_variant 0.25
rpsA 1833684 p.Arg48Gln missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169308 c.1305C>T synonymous_variant 0.29
PPE35 2170048 p.Leu189Val missense_variant 0.62
PPE35 2170053 p.Thr187Ser missense_variant 0.62
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288896 c.346C>T synonymous_variant 0.33
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.67
kasA 2519143 c.1029G>C synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ahpC 2726265 p.Lys25Gln missense_variant 0.22
Rv2752c 3064535 p.Pro553Ser missense_variant 0.25
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
Rv2752c 3065371 p.Arg274Lys missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
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
fbiB 3641610 p.Gly26Ser missense_variant 0.22
alr 3841253 c.168C>T synonymous_variant 1.0
alr 3841277 c.144C>T synonymous_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.43
alr 3841612 c.-193_-192insC upstream_gene_variant 0.15
clpC1 4040517 p.Val63Ala missense_variant 1.0
clpC1 4040757 c.-53G>A upstream_gene_variant 0.5
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4241110 c.1248G>A synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4246752 p.Thr80Asn missense_variant 0.2
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethR 4326766 c.-783G>A upstream_gene_variant 0.29
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407780 c.423G>A synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
whiB6 4338429 c.-218_92del frameshift_variant&start_lost 1.0