TB-Profiler result

Run: SRR4035836
Summary

Run ID: SRR4035836

Sample name:

Date: 04-04-2023 07:19:46

Number of reads: 947804

Percentage reads mapped: 99.5

Strain: lineage4.1.2

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 0.99
lineage4.1.2 Euro-American T;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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8061 p.Arg254Cys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
fgd1 491789 p.Gly336Asp missense_variant 0.11
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764263 c.894G>A synonymous_variant 0.92
rpoC 764364 p.Gly332Asp missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776567 p.Met638Ile missense_variant 0.11
mmpL5 777320 c.1161C>G synonymous_variant 1.0
mmpL5 777347 c.1134C>T synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781568 c.9C>T synonymous_variant 0.17
rplC 801133 p.Gly109Ser missense_variant 0.2
fbiC 1304230 p.Pro434Ser missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475423 n.1766T>A non_coding_transcript_exon_variant 0.11
inhA 1674498 c.297G>A synonymous_variant 0.12
rpsA 1833924 p.Gly128Asp missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168041 p.Ala858Thr missense_variant 0.18
PPE35 2169320 p.Leu431Phe missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288807 c.435C>T synonymous_variant 0.11
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518956 p.Ala281Val missense_variant 0.12
folC 2747002 c.597T>C synonymous_variant 0.11
folC 2747656 c.-58G>T upstream_gene_variant 0.14
pepQ 2859601 c.817delG frameshift_variant 0.13
Rv2752c 3066200 c.-10delT upstream_gene_variant 0.13
thyA 3073806 c.666C>G synonymous_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
clpC1 4038430 c.2275C>T synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4248942 p.Gly810Asp missense_variant 0.12
embB 4249731 p.Ala1073Val missense_variant 0.13
aftB 4267750 p.Phe363Leu missense_variant 0.12
ubiA 4269631 p.Ala68Val missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407555 c.648A>G synonymous_variant 0.12