TB-Profiler result

Run: ERR181440
Summary

Run ID: ERR181440

Sample name:

Date: 31-03-2023 15:15:06

Number of reads: 7664149

Percentage reads mapped: 97.77

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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 0.22
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491027 p.Asn82Thr missense_variant 0.2
fgd1 491112 c.330G>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.18
mshA 575819 p.Ser158Ala missense_variant 0.17
mshA 576184 c.837A>C synonymous_variant 0.15
rpoB 759831 p.Thr9Pro missense_variant 0.14
rpoC 762836 c.-534C>G upstream_gene_variant 0.35
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764751 p.Val461Gly missense_variant 0.23
rpoC 765140 p.Glu591Gln missense_variant 0.99
rpoC 767305 p.Tyr1312* stop_gained 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpR5 778169 c.-821G>A upstream_gene_variant 0.98
mmpS5 779615 c.-710C>G upstream_gene_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.14
fbiC 1303901 p.Val324Gly missense_variant 0.21
fbiC 1304071 p.Thr381Pro missense_variant 0.18
Rv1258c 1406358 p.Ile328Thr missense_variant 0.15
embR 1417233 c.115C>T synonymous_variant 0.19
embR 1417501 c.-154A>C upstream_gene_variant 0.24
rrs 1471658 n.-188T>G upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.12
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.15
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.16
fabG1 1673449 p.Thr4Pro missense_variant 0.41
inhA 1674892 p.Asn231Asp missense_variant 0.18
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.18
PPE35 2169866 c.747G>C synonymous_variant 0.53
PPE35 2170090 p.Pro175Ser missense_variant 0.12
Rv1979c 2222180 p.Ala329Pro missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.23
ahpC 2725954 c.-239C>T upstream_gene_variant 0.3
pepQ 2859381 c.1038C>G synonymous_variant 0.29
Rv2752c 3064741 p.Gly484Ala missense_variant 0.4
thyX 3067965 c.-20C>G upstream_gene_variant 0.14
thyA 3073817 p.Gln219Glu missense_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449673 p.Tyr390* stop_gained 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.21
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
fbiB 3641955 p.Gly141Arg missense_variant 0.14
rpoA 3878641 c.-135delG upstream_gene_variant 0.11
ddn 3986899 p.Lys19Arg missense_variant 0.98
clpC1 4038857 c.1848C>A synonymous_variant 0.15
clpC1 4039363 p.Ala448Pro missense_variant 0.28
clpC1 4039932 p.Gly258Val missense_variant 0.21
embC 4241056 c.1194C>G synonymous_variant 0.13
embC 4241128 c.1266G>C synonymous_variant 0.18
embC 4241429 p.Phe523Val missense_variant 0.69
embC 4241456 p.Ala532Pro missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.27
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243977 p.Ala249Pro missense_variant 0.33
embB 4247646 p.Glu378Gly missense_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.31
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268812 p.Ser9Ala missense_variant 0.15
ubiA 4269529 p.Ala102Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 0.99