TB-Profiler result

Run: ERR4407545
Summary

Run ID: ERR4407545

Sample name:

Date: 01-04-2023 05:49:21

Number of reads: 332440

Percentage reads mapped: 99.42

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 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
gyrB 6220 c.981G>A synonymous_variant 0.29
gyrB 6971 p.Pro578Ser missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8429 c.1128C>A synonymous_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576089 c.750_769delTGATCGGCGCGCGGCCCGGG frameshift_variant 0.1
rpoC 764541 p.Val391Gly missense_variant 0.13
rpoC 764543 p.Thr392Asp missense_variant 0.12
rpoC 765844 c.2477delA frameshift_variant 0.2
rpoC 765906 c.2538delG frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777704 c.777G>A synonymous_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781733 c.174G>A synonymous_variant 0.12
fbiC 1303910 p.Pro327Arg missense_variant 0.2
fbiC 1303927 p.Ala333Ser missense_variant 0.17
fbiC 1305103 p.Val725Leu missense_variant 0.12
fbiC 1305334 p.Gly802Ser missense_variant 0.1
Rv1258c 1407310 p.Leu11Met missense_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474131 n.474C>T non_coding_transcript_exon_variant 0.13
rrl 1475122 n.1465C>A non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154439 p.Ala558Val missense_variant 0.13
katG 2155371 c.741C>T synonymous_variant 1.0
PPE35 2168255 c.2357delT frameshift_variant 0.11
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289711 c.-470T>A upstream_gene_variant 0.17
eis 2714757 c.576C>A synonymous_variant 0.11
pepQ 2860307 p.Gly38Trp missense_variant 0.12
Rv2752c 3064558 p.Tyr545Phe missense_variant 0.25
thyX 3067582 p.Met122Val missense_variant 0.14
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448912 p.Ile137Val missense_variant 0.33
Rv3083 3449142 c.639C>T synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612616 c.501G>T synonymous_variant 0.12
Rv3236c 3612729 p.Ser130Pro missense_variant 0.13
alr 3840551 c.870G>T synonymous_variant 0.12
rpoA 3878197 p.Glu104Gly missense_variant 0.12
clpC1 4038538 p.Thr723Ala missense_variant 0.18
embC 4241139 p.Ala426Glu missense_variant 0.15
embC 4241623 c.1761C>G synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247000 p.Gly163Trp missense_variant 0.11
embB 4249594 c.3081G>A synonymous_variant 1.0
embB 4249749 p.Glu1079Gly missense_variant 0.4
aftB 4267478 c.1359G>A synonymous_variant 0.1
ethA 4326950 p.Ala175Val missense_variant 0.12
ethA 4327109 p.Ser122Asn missense_variant 0.15
ethR 4327587 p.Arg13Ser missense_variant 0.18
ethA 4328214 c.-741C>T upstream_gene_variant 1.0
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0