TB-Profiler result

Run: SRR6046308
Summary

Run ID: SRR6046308

Sample name:

Date: 04-04-2023 12:14:54

Number of reads: 649769

Percentage reads mapped: 99.66

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491777 p.Leu332Ser missense_variant 0.11
mshA 576751 p.Lys468Asn missense_variant 0.22
rpoB 760038 p.Gly78Ser missense_variant 0.14
rpoB 763231 p.Arg1142His missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778072 p.Thr137Ser missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800644 c.-165G>A upstream_gene_variant 0.14
fbiC 1303825 p.Glu299* stop_gained 0.15
fbiC 1304986 p.Pro686Ser missense_variant 0.33
Rv1258c 1407154 p.Gly63Ser missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473043 n.1202delC non_coding_transcript_exon_variant 1.0
rpsA 1834531 p.His330Gln missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.38
katG 2154410 p.Thr568Ala missense_variant 0.12
PPE35 2168026 p.Ala863Thr missense_variant 0.21
PPE35 2168243 c.2370C>T synonymous_variant 0.1
PPE35 2169132 p.Ala494Val missense_variant 0.12
PPE35 2169269 c.1344A>G synonymous_variant 0.2
PPE35 2169272 c.1341C>G synonymous_variant 0.2
Rv1979c 2222441 p.Ala242Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714569 p.Ala255Gly missense_variant 0.18
eis 2714670 c.663C>T synonymous_variant 1.0
eis 2714933 p.Ala134Ser missense_variant 0.11
eis 2715167 p.Ser56Thr missense_variant 0.13
ahpC 2726334 c.142C>A synonymous_variant 0.11
folC 2746545 p.Ala352Ser missense_variant 0.17
ribD 2986726 c.-113G>T upstream_gene_variant 0.14
ribD 2987525 c.687G>A synonymous_variant 0.17
thyA 3074654 c.-183T>G upstream_gene_variant 0.23
ald 3086981 c.162C>T synonymous_variant 0.12
fbiD 3339273 c.156T>G synonymous_variant 0.29
fbiD 3339688 p.Thr191Pro missense_variant 0.4
Rv3236c 3612494 p.Arg208Leu missense_variant 0.22
Rv3236c 3612835 c.282T>G synonymous_variant 0.25
fbiA 3640562 p.Ala7Val missense_variant 0.13
fbiB 3641758 p.Arg75His missense_variant 0.11
rpoA 3877536 c.972C>T synonymous_variant 1.0
aftB 4268164 p.Gln225* stop_gained 0.12
ethR 4327884 p.Glu112Asp missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408405 c.-203G>T upstream_gene_variant 0.15