TB-Profiler result

Run: ERR2229171
Summary

Run ID: ERR2229171

Sample name:

Date: 31-03-2023 16:46:52

Number of reads: 466606

Percentage reads mapped: 98.99

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
gyrB 5848 c.609G>T synonymous_variant 0.22
gyrA 7288 c.-14C>T upstream_gene_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 490724 c.-59G>A upstream_gene_variant 0.14
fgd1 490734 c.-49A>G upstream_gene_variant 0.12
fgd1 490744 c.-39T>C upstream_gene_variant 0.13
fgd1 491175 c.393G>C synonymous_variant 0.29
fgd1 491628 p.Lys282Asn missense_variant 0.33
rpoB 759873 p.Asn23Tyr missense_variant 0.2
rpoB 760250 p.Met148Ile missense_variant 0.14
rpoB 761152 p.Leu449Gln missense_variant 0.29
rpoB 763008 p.Trp1068Arg missense_variant 0.12
rpoC 763436 c.69delG frameshift_variant 0.2
rpoC 766402 c.3033C>A synonymous_variant 0.4
rpoC 767119 c.3750A>G synonymous_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775981 p.Leu834Met missense_variant 0.22
mmpL5 776174 c.2307C>T synonymous_variant 0.18
mmpL5 777150 p.Asn444Thr missense_variant 0.29
mmpL5 777164 c.1317C>T synonymous_variant 0.33
mmpL5 777173 c.1308C>T synonymous_variant 0.33
mmpL5 777176 p.Glu435Asp missense_variant 0.4
mmpL5 778398 p.Ile28Asn missense_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800627 c.-182C>A upstream_gene_variant 0.17
rplC 801314 p.Arg169Gln missense_variant 0.25
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305121 p.Asp731Tyr missense_variant 0.29
fbiC 1305342 c.2412C>T synonymous_variant 0.33
Rv1258c 1406404 p.Val313Phe missense_variant 0.17
Rv1258c 1406632 p.Ala237Thr missense_variant 0.29
Rv1258c 1407398 c.-58A>G upstream_gene_variant 0.14
embR 1417264 c.84G>A synonymous_variant 0.22
embR 1417370 c.-23C>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473303 n.1458T>G non_coding_transcript_exon_variant 0.15
rrl 1473442 n.-216G>T upstream_gene_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474451 n.794T>C non_coding_transcript_exon_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
fabG1 1674041 p.Gly201Val missense_variant 0.25
rpsA 1833420 c.-122C>T upstream_gene_variant 0.33
rpsA 1833522 c.-20G>T upstream_gene_variant 0.22
rpsA 1833614 p.Ala25Thr missense_variant 0.15
rpsA 1833670 c.129C>A synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918492 p.Phe185Val missense_variant 0.17
ndh 2102367 p.Ala226Pro missense_variant 0.67
ndh 2102368 c.675C>T synonymous_variant 0.67
ndh 2102638 c.405A>G synonymous_variant 0.29
ndh 2102846 p.Gly66Val missense_variant 0.14
katG 2154987 c.1125G>A synonymous_variant 0.29
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168933 c.1680T>A synonymous_variant 0.33
PPE35 2168974 c.1638delC frameshift_variant 0.17
PPE35 2169269 c.1344A>G synonymous_variant 0.17
PPE35 2169272 c.1341C>G synonymous_variant 0.17
PPE35 2169278 c.1335T>C synonymous_variant 0.15
PPE35 2169281 c.1332T>G synonymous_variant 0.15
PPE35 2169457 p.His386Asp missense_variant 0.17
PPE35 2169910 p.Asn235Tyr missense_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.85
PPE35 2170053 p.Thr187Ser missense_variant 0.85
PPE35 2170157 p.Ala152Ser missense_variant 0.33
PPE35 2170202 c.411A>G synonymous_variant 0.29
PPE35 2170207 p.Ala136Thr missense_variant 0.25
PPE35 2170403 c.210C>A synonymous_variant 0.25
PPE35 2170406 c.207A>G synonymous_variant 0.33
PPE35 2170528 p.Ser29Ala missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289194 c.48T>A synonymous_variant 0.4
ahpC 2726223 p.Pro11Ser missense_variant 0.18
ahpC 2726287 p.Gly32Asp missense_variant 0.22
ahpC 2726712 p.Cys174Ser missense_variant 0.22
ald 3087104 p.Leu95Phe missense_variant 0.2
ald 3087879 p.Arg354Trp missense_variant 1.0
Rv3236c 3612965 c.151delG frameshift_variant 0.22
fbiB 3640632 c.-903C>A upstream_gene_variant 1.0
fbiA 3640880 p.Leu113Arg missense_variant 1.0
fbiA 3640888 c.349delC frameshift_variant 1.0
fbiB 3641382 c.-153C>T upstream_gene_variant 0.25
alr 3841546 c.-126C>A upstream_gene_variant 0.31
rpoA 3878161 p.Val116Gly missense_variant 0.25
rpoA 3878174 p.Pro112Thr missense_variant 0.25
rpoA 3878312 p.Val66Leu missense_variant 0.33
clpC1 4038649 p.Gly686Cys missense_variant 0.25
clpC1 4039030 p.Lys559Glu missense_variant 0.33
clpC1 4039498 p.Ile403Val missense_variant 0.29
clpC1 4039682 c.1023C>T synonymous_variant 0.22
clpC1 4040057 c.648C>T synonymous_variant 0.5
clpC1 4040144 c.561G>C synonymous_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242648 p.Leu929Arg missense_variant 0.25
embB 4246544 p.Thr11Pro missense_variant 0.25
embB 4246548 p.Pro12Gln missense_variant 0.62
embB 4246555 c.42G>C synonymous_variant 0.71
embB 4246556 p.Ala15Pro missense_variant 0.71
embB 4247757 p.Thr415Asn missense_variant 1.0
embB 4248419 p.Leu636Val missense_variant 0.5
embB 4248484 p.Asn657Lys missense_variant 0.4
aftB 4266992 c.1845C>T synonymous_variant 1.0
aftB 4267183 p.Gly552Cys missense_variant 0.12
ubiA 4269016 c.817delG frameshift_variant 0.25
ethR 4326961 c.-588G>C upstream_gene_variant 0.2
ethR 4326964 c.-585G>A upstream_gene_variant 0.2
ethR 4326970 c.-579G>T upstream_gene_variant 0.2
ethR 4327207 c.-342C>T upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408253 c.-51A>G upstream_gene_variant 0.2
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0