TB-Profiler result

Run: SRR023445
Summary

Run ID: SRR023445

Sample name:

Date: 02-04-2023 14:11:36

Number of reads: 309164

Percentage reads mapped: 97.11

Strain: lineage4

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
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 5609 p.Gly124Cys missense_variant 0.29
gyrB 5688 p.Tyr150Cys missense_variant 0.33
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760593 p.Gly263Cys missense_variant 1.0
rpoC 766110 p.Pro914Gln missense_variant 0.67
rpoC 767124 p.Val1252Ala missense_variant 0.33
mmpS5 778750 p.Asp52Glu missense_variant 0.33
mmpS5 778792 p.Leu38Phe missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303453 p.Arg175Ser missense_variant 0.4
fbiC 1303799 p.Val290Glu missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.19
rrl 1474980 n.1323G>T non_coding_transcript_exon_variant 0.67
rrl 1475776 n.2119G>T non_coding_transcript_exon_variant 0.14
rpsA 1833472 c.-70C>T upstream_gene_variant 0.4
rpsA 1833554 p.Thr5Pro missense_variant 0.4
rpsA 1833611 p.Ala24Ser missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153929 p.Trp728* stop_gained 0.67
PPE35 2169827 c.786G>T synonymous_variant 0.14
Rv1979c 2222464 p.Gly234Asp missense_variant 0.33
Rv1979c 2222534 p.Ala211Thr missense_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746723 c.876G>A synonymous_variant 0.29
ribD 2987150 p.Gln104His missense_variant 1.0
thyA 3073993 p.Ser160Ile missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
whiB7 3568846 c.-167G>A upstream_gene_variant 0.5
fbiA 3640379 c.-164T>C upstream_gene_variant 1.0
rpoA 3878680 c.-173C>A upstream_gene_variant 0.2
clpC1 4038656 p.Lys683Asn missense_variant 0.5
embB 4248065 p.Trp518Arg missense_variant 0.29
embB 4249686 p.Ala1058Asp missense_variant 0.67
aftB 4267660 p.Pro393Thr missense_variant 1.0
ubiA 4269188 p.Thr216Pro missense_variant 0.5
ethA 4327227 p.Glu83* stop_gained 0.4