TB-Profiler result

Run: SRR13837702
Summary

Run ID: SRR13837702

Sample name:

Date: 03-04-2023 09:16:15

Number of reads: 295456

Percentage reads mapped: 98.55

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
gyrB 6027 p.His263Arg missense_variant 1.0
mshA 576327 p.Phe327Tyr missense_variant 1.0
rpoB 759707 c.-100C>T upstream_gene_variant 1.0
rpoB 760178 c.372G>C synonymous_variant 1.0
rpoB 761180 c.1374A>C synonymous_variant 0.17
rpoB 761189 c.1383T>C synonymous_variant 0.17
rpoB 761195 c.1389G>C synonymous_variant 0.2
rpoB 761207 c.1401C>T synonymous_variant 0.2
rpoB 762284 c.2478G>A synonymous_variant 1.0
rpoC 764262 p.Val298Ala missense_variant 1.0
rpoC 765700 c.2331T>C synonymous_variant 0.18
rpoC 766573 c.3204T>C synonymous_variant 0.13
rpoC 766583 p.Gly1072Ser missense_variant 0.12
rpoC 766591 c.3222A>G synonymous_variant 0.14
rpoC 766594 c.3225G>C synonymous_variant 0.13
rpoC 766597 c.3228C>G synonymous_variant 0.13
rpoC 766607 p.Ile1080Leu missense_variant 0.14
rpoC 766630 c.3261G>C synonymous_variant 0.14
rpoC 766657 c.3288A>G synonymous_variant 0.12
rpoC 766672 c.3303T>C synonymous_variant 0.12
rpoC 766673 p.Gly1102Asn missense_variant 0.12
rpoC 766738 c.3369G>C synonymous_variant 0.13
rpoC 766765 c.3396A>C synonymous_variant 0.15
rpoC 766774 c.3405T>C synonymous_variant 0.14
rpoC 766801 c.3432C>G synonymous_variant 0.2
rpoC 766804 c.3435A>G synonymous_variant 0.2
mmpL5 777280 p.Ala401Ser missense_variant 1.0
mmpS5 778853 p.Val18Ala missense_variant 1.0
embR 1416662 p.Arg229Pro missense_variant 1.0
rrl 1476288 n.2631T>C non_coding_transcript_exon_variant 1.0
rpsA 1834123 c.582C>G synonymous_variant 0.22
katG 2155675 p.Arg146Leu missense_variant 1.0
Rv1979c 2222433 c.732A>G synonymous_variant 1.0
thyX 3067232 c.714C>G synonymous_variant 0.12
thyX 3067246 p.Thr234Ala missense_variant 0.12
thyX 3067249 p.Thr233Ser missense_variant 0.12
thyX 3067250 c.696G>C synonymous_variant 0.12
thyX 3067274 c.672C>G synonymous_variant 0.12
thyX 3067277 c.669C>G synonymous_variant 0.12
thyX 3067281 p.Val222Ala missense_variant 0.12
thyX 3067284 p.Ala221Gly missense_variant 0.12
thyX 3067289 c.657C>G synonymous_variant 0.12
thyX 3067292 c.654G>A synonymous_variant 0.12
thyX 3067295 c.651C>T synonymous_variant 0.13
thyX 3067313 c.633G>T synonymous_variant 0.14
thyX 3067316 c.630A>G synonymous_variant 0.13
thyX 3067325 c.621A>G synonymous_variant 0.14
thyX 3067349 c.597G>C synonymous_variant 0.21
thyX 3067355 c.591A>C synonymous_variant 0.21
thyX 3067367 c.579G>C synonymous_variant 0.15
thyX 3067373 c.573C>G synonymous_variant 0.14
thyA 3074214 c.258T>C synonymous_variant 0.14
ald 3086631 c.-189A>G upstream_gene_variant 1.0
Rv3236c 3612954 c.162delC frameshift_variant 1.0
alr 3840284 p.Trp379* stop_gained 1.0
embC 4240042 p.Asn60Lys missense_variant 1.0
embB 4245806 c.-708G>A upstream_gene_variant 1.0
embB 4247075 c.563dupT frameshift_variant 1.0
embB 4247839 c.1326G>A synonymous_variant 1.0
embB 4249763 p.Thr1084Pro missense_variant 1.0
ethA 4326860 p.Leu205Pro missense_variant 1.0