TB-Profiler result

Run: SRR6981967
Summary

Run ID: SRR6981967

Sample name:

Date: 04-04-2023 18:23:20

Number of reads: 646174

Percentage reads mapped: 99.59

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576332 p.Pro329Thr missense_variant 0.12
ccsA 620221 p.Tyr111His missense_variant 0.1
ccsA 620659 p.Arg257Ser missense_variant 0.14
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761288 c.1482G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766751 p.Arg1128Ser missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406609 p.Ser244Arg missense_variant 0.12
Rv1258c 1406682 p.Trp220Leu missense_variant 0.12
Rv1258c 1407454 c.-114G>C upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473827 n.170G>T non_coding_transcript_exon_variant 0.12
rpsA 1834974 p.Ala478Val missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102802 p.Asn81Asp missense_variant 0.15
ndh 2102816 p.Leu76Pro missense_variant 0.12
katG 2155292 p.Lys274Glu missense_variant 0.12
PPE35 2170192 p.Glu141Gln missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2715172 p.Pro54Gln missense_variant 0.11
Rv2752c 3064647 c.1545G>T synonymous_variant 0.11
thyA 3074645 c.-174T>G upstream_gene_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474136 c.132_133delTC frameshift_variant 0.13
fprA 3475139 p.Thr378Asn missense_variant 0.12
fbiB 3642181 c.649delG frameshift_variant 0.12
rpoA 3878379 c.129G>A synonymous_variant 0.11
rpoA 3878483 p.Leu9Met missense_variant 0.18
rpoA 3878567 c.-60C>G upstream_gene_variant 0.67
embC 4240233 p.Gln124Arg missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242763 c.-470G>C upstream_gene_variant 0.14
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243648 p.Leu139Arg missense_variant 0.13
embB 4246555 c.42G>C synonymous_variant 0.11
embB 4246556 p.Ala15Pro missense_variant 0.11
embB 4246563 p.Leu17Trp missense_variant 0.11
embB 4246567 c.54G>T synonymous_variant 0.11
aftB 4268630 c.207G>T synonymous_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0