TB-Profiler result

Run: ERR3994122
Summary

Run ID: ERR3994122

Sample name:

Date: 01-04-2023 03:43:06

Number of reads: 2338174

Percentage reads mapped: 99.97

Strain: lineage4.3.2

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
lineage4.3.2 Euro-American (LAM) LAM3 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 8456 p.Asn385Lys missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491540 p.Ser253Leu missense_variant 0.13
ccsA 620465 p.Ala192Asp missense_variant 0.25
ccsA 620651 p.Ala254Val missense_variant 0.17
rpoC 762686 c.-684G>A upstream_gene_variant 0.14
rpoB 762881 p.Met1025Ile missense_variant 0.2
rpoC 764913 p.Met515Thr missense_variant 0.12
rpoC 764964 p.Phe532Ser missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 767133 p.Gly1255Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776953 p.Leu510Met missense_variant 0.13
mmpL5 777795 p.Ser229Trp missense_variant 0.1
mmpL5 777996 p.Ala162Gly missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800639 c.-170C>A upstream_gene_variant 0.12
fbiC 1304184 c.1254G>C synonymous_variant 0.17
fbiC 1304243 p.Pro438Arg missense_variant 0.18
Rv1258c 1406205 p.Thr379Met missense_variant 0.29
embR 1416334 p.Asn338Lys missense_variant 0.11
embR 1416810 p.Ala180Ser missense_variant 0.14
embR 1417045 p.Tyr101* stop_gained 0.12
atpE 1461118 p.Gly25Asp missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
inhA 1674283 p.Val28Ile missense_variant 0.13
rpsA 1833369 c.-173C>G upstream_gene_variant 0.18
rpsA 1833441 c.-101C>T upstream_gene_variant 0.12
rpsA 1834190 p.Ser217Thr missense_variant 0.11
rpsA 1834307 p.Asp256Asn missense_variant 0.15
rpsA 1834337 p.Asp266Asn missense_variant 0.14
rpsA 1834488 p.Gly316Ala missense_variant 0.13
rpsA 1834939 c.1398C>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154520 p.Ala531Val missense_variant 0.15
katG 2154674 p.Ala480Pro missense_variant 0.11
katG 2155318 p.Leu265Pro missense_variant 0.17
PPE35 2169545 c.1058_1067delACCCCGGACA frameshift_variant 0.14
PPE35 2170588 p.Glu9Lys missense_variant 0.17
Rv1979c 2222229 p.Met312Ile missense_variant 0.13
Rv1979c 2222274 p.Asn297Lys missense_variant 0.13
Rv1979c 2222412 p.Asn251Lys missense_variant 0.11
Rv1979c 2222420 p.Asp249Asn missense_variant 0.12
Rv1979c 2222852 p.Ala105Thr missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289324 c.-83C>G upstream_gene_variant 0.12
kasA 2518193 p.Pro27Thr missense_variant 0.12
kasA 2519015 p.Ser301Thr missense_variant 0.12
eis 2714477 p.Arg286Ser missense_variant 0.12
eis 2715137 p.Asp66Tyr missense_variant 0.25
eis 2715240 p.Glu31Asp missense_variant 0.12
eis 2715556 c.-224C>T upstream_gene_variant 0.12
ahpC 2725930 c.-263C>G upstream_gene_variant 0.14
ahpC 2726043 c.-150C>T upstream_gene_variant 0.11
folC 2746224 p.Asp459Tyr missense_variant 0.47
folC 2747796 c.-198C>T upstream_gene_variant 0.2
pepQ 2860085 p.Gly112Arg missense_variant 0.2
pepQ 2860177 p.Arg81His missense_variant 0.13
pepQ 2860436 c.-18C>T upstream_gene_variant 1.0
ribD 2986916 c.78C>T synonymous_variant 0.13
ribD 2987297 c.459C>G synonymous_variant 0.17
thyX 3068094 c.-149A>G upstream_gene_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074481 c.-10C>T upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086810 c.-10_-9insG upstream_gene_variant 0.18
ald 3086856 p.Glu13Lys missense_variant 0.14
ald 3087889 p.Thr357Asn missense_variant 0.12
ald 3087902 c.1083G>T synonymous_variant 0.16
Rv3083 3448717 p.Val72Met missense_variant 0.13
Rv3083 3448737 c.234C>T synonymous_variant 0.12
Rv3083 3448853 p.Thr117Asn missense_variant 0.12
Rv3083 3449666 p.Ile388Asn missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474107 c.103delG frameshift_variant 0.12
whiB7 3568427 p.Arg85Cys missense_variant 0.12
whiB7 3568777 c.-98C>A upstream_gene_variant 0.12
Rv3236c 3612817 c.300C>T synonymous_variant 0.12
fbiB 3641927 c.393C>G synonymous_variant 0.2
fbiB 3641990 p.Met152Ile missense_variant 0.18
fbiB 3642365 p.Glu277Asp missense_variant 0.2
alr 3840955 p.Val156Phe missense_variant 0.18
rpoA 3878234 p.Pro92Ala missense_variant 0.12
rpoA 3878275 p.Leu78Pro missense_variant 0.14
ddn 3986868 c.25C>T synonymous_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038717 p.Ile663Thr missense_variant 0.12
clpC1 4040502 p.Gly68Ala missense_variant 0.12
panD 4044072 c.210C>T synonymous_variant 0.12
embC 4239885 p.Pro8His missense_variant 0.15
embC 4239899 p.Arg13Trp missense_variant 0.15
embA 4242425 c.-808C>A upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244596 p.Pro455Arg missense_variant 0.2
embA 4244871 p.Gly547Arg missense_variant 0.17
embA 4244986 p.Gly585Asp missense_variant 0.33
embB 4248078 p.Asn522Ser missense_variant 0.11
embB 4248794 p.Ala761Thr missense_variant 0.13
embB 4249255 c.2742G>C synonymous_variant 0.25
embB 4249643 p.Leu1044Val missense_variant 0.11
aftB 4267134 p.Cys568Phe missense_variant 0.11
aftB 4267914 p.Pro308Gln missense_variant 0.2
ethA 4327003 p.Phe157Leu missense_variant 0.33
ethA 4327239 p.Lys79Glu missense_variant 0.1
ethR 4327444 c.-105C>G upstream_gene_variant 0.13
ethA 4327608 c.-135C>T upstream_gene_variant 0.13
ethR 4327742 p.Phe65Tyr missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0