TB-Profiler result

Run: ERR233355
Summary

Run ID: ERR233355

Sample name:

Date: 13-08-2022 02:44:38

Number of reads: 5773743

Percentage reads mapped: 98.62

Strain: lineage7

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
lineage7 Lineage 7 None 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 7493 c.192C>T synonymous_variant 0.37
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7655 c.354G>C synonymous_variant 0.17
gyrA 7799 c.498A>C synonymous_variant 0.16
gyrA 8876 c.1575C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.3
mshA 576184 c.837A>C synonymous_variant 0.23
rpoB 759831 p.Thr9Pro missense_variant 0.23
rpoB 759906 p.Ser34Ala missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764013 p.Glu215Ala missense_variant 1.0
rpoC 764725 p.Phe452Leu missense_variant 0.21
rpoC 764751 p.Val461Gly missense_variant 0.24
rpoC 766955 p.Glu1196Lys missense_variant 1.0
rpoC 767305 p.Tyr1312* stop_gained 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776202 p.Gly760Ala missense_variant 1.0
mmpR5 779239 p.Ala84Pro missense_variant 0.3
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781488 c.-72G>A upstream_gene_variant 1.0
fbiC 1305129 c.2199C>T synonymous_variant 1.0
Rv1258c 1406358 p.Ile328Thr missense_variant 0.17
embR 1416977 p.His124Arg missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.15
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.17
rrl 1474959 n.1303_1304insAC non_coding_transcript_exon_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.12
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.15
inhA 1674892 p.Asn231Asp missense_variant 0.15
rpsA 1834916 p.Thr459Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918281 c.342A>C synonymous_variant 1.0
ndh 2102218 c.825C>T synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.21
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167871 c.2742G>C synonymous_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 0.98
PPE35 2169232 p.Thr461Ala missense_variant 0.99
PPE35 2169379 p.Phe412Val missense_variant 0.21
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518891 c.777C>A synonymous_variant 0.21
eis 2714366 p.Val323Leu missense_variant 0.22
ahpC 2726550 p.Gln120Lys missense_variant 0.17
folC 2746186 c.1413G>C synonymous_variant 0.16
folC 2747218 p.Ile127Met missense_variant 0.24
ribD 2987392 p.Arg185Pro missense_variant 0.19
Rv2752c 3065880 c.312C>T synonymous_variant 1.0
thyA 3074172 c.300G>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339550 p.Gly145Trp missense_variant 0.15
Rv3083 3448540 p.Gly13Ser missense_variant 1.0
Rv3083 3449673 p.Tyr390* stop_gained 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.16
fbiA 3641411 p.Val290Gly missense_variant 0.21
fbiB 3641955 p.Gly141Arg missense_variant 0.17
alr 3841504 c.-84C>G upstream_gene_variant 0.17
rpoA 3878040 c.468T>C synonymous_variant 1.0
rpoA 3878641 c.-135delG upstream_gene_variant 0.17
ddn 3987013 p.Gly57Ala missense_variant 0.24
clpC1 4039363 p.Ala448Pro missense_variant 0.17
clpC1 4039932 p.Gly258Val missense_variant 0.38
embC 4239973 c.111T>G synonymous_variant 0.16
embC 4240153 c.291G>A synonymous_variant 1.0
embC 4240355 p.Ala165Pro missense_variant 0.24
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240922 p.Thr354Ala missense_variant 1.0
embC 4241056 c.1194C>G synonymous_variant 0.23
embC 4241783 p.Trp641Gly missense_variant 0.24
embC 4242476 p.Pro872Ala missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.15
embA 4244375 c.1143C>G synonymous_variant 0.24
embA 4246423 p.Val1064Gly missense_variant 0.17
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248073 c.1560C>T synonymous_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.17
aftB 4267649 c.1188T>C synonymous_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.18
ethA 4328371 c.-898C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408329 c.-127C>G upstream_gene_variant 0.25