TB-Profiler result

Run: SRR19392208
Summary

Run ID: SRR19392208

Sample name:

Date: 03-04-2023 21:36:48

Number of reads: 2156106

Percentage reads mapped: 99.62

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 9374 c.2073G>A synonymous_variant 1.0
mshA 575294 c.-54C>A upstream_gene_variant 0.29
mshA 576245 p.Gly300* stop_gained 0.15
mshA 576342 p.Ser332Tyr missense_variant 0.2
mshA 576369 p.Arg341Leu missense_variant 0.25
mshA 576478 c.1131G>T synonymous_variant 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777394 c.1087C>A synonymous_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303918 p.Arg330Cys missense_variant 0.12
fbiC 1304106 c.1176G>T synonymous_variant 0.2
fbiC 1304387 p.Arg486Leu missense_variant 0.18
fbiC 1304475 c.1545G>T synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918090 p.Ala51Thr missense_variant 0.33
tlyA 1918108 p.Asp57Asn missense_variant 0.33
tlyA 1918220 p.Gly94Asp missense_variant 0.12
tlyA 1918566 c.627C>A synonymous_variant 0.14
PPE35 2170346 p.Gln89His missense_variant 0.17
Rv1979c 2222348 c.816_817insA frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519128 c.1014G>A synonymous_variant 0.22
eis 2714992 p.Pro114Leu missense_variant 0.5
pepQ 2860182 c.237C>T synonymous_variant 0.25
thyX 3067548 p.Thr133Asn missense_variant 0.15
ald 3087303 p.Gly162Trp missense_variant 0.18
ald 3087338 c.519G>T synonymous_variant 0.22
fbiD 3339306 c.189C>A synonymous_variant 0.2
Rv3083 3448480 c.-24G>T upstream_gene_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474917 p.Ala304Asp missense_variant 0.18
fbiA 3640624 p.Phe28Val missense_variant 1.0
fbiB 3642110 c.576C>A synonymous_variant 0.18
fbiB 3642231 p.Leu233Met missense_variant 0.33
fbiB 3642264 p.Gly244Trp missense_variant 0.25
alr 3841031 c.390C>A synonymous_variant 0.33
alr 3841072 p.Gly117Cys missense_variant 0.2
alr 3841077 p.Pro115Gln missense_variant 0.2
rpoA 3878560 c.-53C>G upstream_gene_variant 0.22
rpoA 3878574 c.-67G>T upstream_gene_variant 0.67
embC 4240483 c.621G>T synonymous_variant 0.17
embC 4241168 p.Leu436Met missense_variant 0.25
embC 4241647 c.1785G>C synonymous_variant 0.29
embC 4242556 p.Leu898Phe missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243922 c.690C>A synonymous_variant 0.2
embA 4244375 c.1143C>A synonymous_variant 0.25
embA 4244443 p.Arg404Leu missense_variant 1.0
embA 4244615 c.1383G>A synonymous_variant 0.14
embB 4245828 c.-686C>A upstream_gene_variant 0.18
embB 4246783 c.270C>A synonymous_variant 0.22
embB 4247019 p.Gly169Val missense_variant 0.15
embB 4247108 p.Gly199Trp missense_variant 0.33
embB 4248599 p.Gly696Trp missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0