TB-Profiler result

Run: SRR6982248
Summary

Run ID: SRR6982248

Sample name:

Date: 04-04-2023 18:31:47

Number of reads: 455181

Percentage reads mapped: 99.84

Strain: lineage4.8.1

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
lineage4.8.1 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
mshA 576322 c.975G>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778442 c.-548G>T upstream_gene_variant 0.15
mmpR5 779106 p.Leu39Phe missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303945 p.Ser339Pro missense_variant 0.1
Rv1258c 1406142 p.Leu400Pro missense_variant 0.12
Rv1258c 1406349 p.Ile331Thr missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475148 n.1491G>C non_coding_transcript_exon_variant 0.11
rrl 1476704 n.3053delC non_coding_transcript_exon_variant 1.0
fabG1 1673647 p.Arg70Ser missense_variant 0.11
fabG1 1673747 p.Glu103Val missense_variant 0.12
rpsA 1834780 p.Glu413Asp missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102552 p.Pro164Gln missense_variant 0.11
ndh 2102760 p.Ala95Thr missense_variant 0.11
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289603 c.-362G>C upstream_gene_variant 0.12
kasA 2518866 c.754delG frameshift_variant 0.17
eis 2714724 p.Glu203Asp missense_variant 0.13
eis 2714991 c.342G>T synonymous_variant 0.11
ribD 2986975 p.Ile46Asn missense_variant 0.14
Rv2752c 3065684 p.Asp170Asn missense_variant 0.12
Rv2752c 3065937 p.Asp85Glu missense_variant 0.1
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fprA 3473909 c.-98G>A upstream_gene_variant 0.17
fprA 3475168 p.Asn388Asp missense_variant 0.15
fprA 3475329 c.1323G>T synonymous_variant 0.1
Rv3236c 3612192 p.Gly309Trp missense_variant 0.1
fbiA 3640476 c.-66_-65delCG upstream_gene_variant 0.13
fbiA 3641042 p.Ile167Thr missense_variant 0.14
fbiB 3642874 p.Leu447Arg missense_variant 1.0
alr 3841140 c.280delG frameshift_variant 0.13
embC 4240028 p.Thr56Ser missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245229 p.Phe666Tyr missense_variant 0.2
embB 4246997 p.Val162Ile missense_variant 0.12
aftB 4267523 c.1314G>A synonymous_variant 0.15
ubiA 4269332 p.Thr168Pro missense_variant 0.18
ubiA 4269903 c.-71delG upstream_gene_variant 0.11
ubiA 4269982 c.-149T>A upstream_gene_variant 0.12
ethA 4327133 p.Asn114Ser missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408064 p.Arg47Gly missense_variant 0.12
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0