TB-Profiler result

Run: SRR5535688
Summary

Run ID: SRR5535688

Sample name:

Date: 04-04-2023 10:37:49

Number of reads: 1333762

Percentage reads mapped: 99.13

Strain: lineage4

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7404 p.Val35Leu missense_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9689 c.2388G>A synonymous_variant 0.17
fgd1 490788 c.6T>C synonymous_variant 0.25
mshA 575688 p.Ala114Glu missense_variant 0.12
rpoB 759617 c.-190C>T upstream_gene_variant 0.67
rpoB 759951 p.Asp49Tyr missense_variant 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765289 c.1920G>T synonymous_variant 0.29
rpoC 766111 c.2743_2745delTAC conservative_inframe_deletion 0.5
mmpL5 775639 p.Ile948Val missense_variant 1.0
fbiC 1302826 c.-105G>T upstream_gene_variant 0.4
Rv1258c 1406431 p.Val304Ile missense_variant 0.4
embR 1417014 p.Leu112Val missense_variant 0.67
atpE 1460887 c.-158T>G upstream_gene_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473625 n.-33T>C upstream_gene_variant 0.67
rrl 1476055 n.2398C>T non_coding_transcript_exon_variant 1.0
fabG1 1673824 p.Arg129Cys missense_variant 0.29
inhA 1674921 c.720G>A synonymous_variant 0.15
inhA 1674982 p.Asp261Tyr missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102710 c.333C>A synonymous_variant 0.29
katG 2154994 p.Arg373His missense_variant 0.67
katG 2155197 c.915C>G synonymous_variant 0.4
katG 2156119 c.-8G>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289171 p.Gly24Val missense_variant 0.22
pncA 2289348 c.-107T>C upstream_gene_variant 0.25
eis 2714786 p.Arg183Cys missense_variant 0.17
ahpC 2726210 c.18T>C synonymous_variant 1.0
pepQ 2860279 p.Ala47Gly missense_variant 1.0
pepQ 2860369 p.Ser17Tyr missense_variant 0.15
Rv2752c 3064726 p.Ala489Glu missense_variant 0.22
Rv2752c 3065420 p.Arg258* stop_gained 0.4
Rv2752c 3066290 c.-99G>T upstream_gene_variant 0.2
Rv2752c 3066388 c.-197C>A upstream_gene_variant 0.5
thyA 3074375 p.Gln33Lys missense_variant 0.33
fbiD 3338925 c.-193G>A upstream_gene_variant 0.17
fbiD 3339377 p.Asp87Gly missense_variant 0.15
fbiD 3339550 p.Gly145Arg missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640520 c.-23G>C upstream_gene_variant 0.67
fbiA 3641447 p.Thr302Met missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
ddn 3986753 c.-91G>T upstream_gene_variant 0.2
ddn 3987281 c.438C>A synonymous_variant 0.22
clpC1 4039347 p.Arg453Gln missense_variant 0.5
clpC1 4040717 c.-13C>A upstream_gene_variant 0.25
embC 4242110 p.Gly750Trp missense_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4242985 c.-248C>T upstream_gene_variant 0.17
embA 4243850 c.618G>T synonymous_variant 0.22
embA 4245606 p.Leu792Met missense_variant 0.14
embA 4246194 p.Pro988Thr missense_variant 0.33
embB 4248796 c.2283G>T synonymous_variant 1.0
embB 4249227 p.Pro905Leu missense_variant 0.22
aftB 4268189 c.648C>A synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0