TB-Profiler result

Run: SRR11972199
Summary

Run ID: SRR11972199

Sample name:

Date: 03-04-2023 05:31:47

Number of reads: 192083

Percentage reads mapped: 98.85

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
lineage1.1.1 Indo-Oceanic EAI4;EAI5 RD239 0.99
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 7310 c.9C>T synonymous_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
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490623 c.-160G>A upstream_gene_variant 0.13
fgd1 491569 p.Asp263Asn missense_variant 0.29
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576747 p.Gly467Asp missense_variant 0.2
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 765171 p.Pro601Leu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305000 p.Trp690Cys missense_variant 0.13
fbiC 1305446 p.Gly839Asp missense_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
embR 1417292 p.Leu19Trp missense_variant 0.88
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474709 n.1052G>T non_coding_transcript_exon_variant 1.0
rrl 1476112 n.2458delT non_coding_transcript_exon_variant 0.14
rpsA 1834319 p.Val260Ile missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154463 p.Ala550Val missense_variant 0.2
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156434 c.-323G>A upstream_gene_variant 0.15
PPE35 2167865 c.2748G>C synonymous_variant 0.2
PPE35 2167868 c.2745A>C synonymous_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169901 p.Gly238Trp missense_variant 0.64
PPE35 2169902 p.Leu237Phe missense_variant 0.36
PPE35 2169910 p.Asn235Tyr missense_variant 0.42
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223144 p.Arg7Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518210 c.96G>T synonymous_variant 0.14
eis 2714756 p.Pro193Ser missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
Rv2752c 3064991 p.Arg401Trp missense_variant 0.22
Rv2752c 3065303 p.Pro297Ser missense_variant 0.33
thyA 3074078 p.Ala132Thr missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087628 c.811delC frameshift_variant 0.17
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
fbiA 3640739 p.Met66Thr missense_variant 0.13
alr 3841336 p.Ser29Pro missense_variant 0.2
alr 3841546 c.-126C>A upstream_gene_variant 0.32
rpoA 3878298 c.210A>G synonymous_variant 0.18
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
clpC1 4039045 p.Pro554Ser missense_variant 0.29
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4239750 c.-113G>T upstream_gene_variant 0.29
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 4243848 p.Val206Met missense_variant 1.0
embA 4244096 c.864C>T synonymous_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4268505 p.Arg111Gln missense_variant 0.14
aftB 4268601 p.Leu79Gln missense_variant 0.22
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
whiB6 4338242 p.Gln94Glu missense_variant 1.0
whiB6 4338334 p.Ala63Val missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0