TB-Profiler result

Run: ERR4816213
Summary

Run ID: ERR4816213

Sample name:

Date: 01-04-2023 14:18:10

Number of reads: 744865

Percentage reads mapped: 93.26

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575895 p.Val183Ala missense_variant 0.2
mshA 576517 c.1171delT frameshift_variant 0.14
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761454 p.Glu550* stop_gained 0.17
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763222 p.Ile1139Thr missense_variant 0.11
rpoC 766585 c.3216T>C synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775690 p.Ala931Thr missense_variant 0.13
mmpL5 775768 p.Gln905* stop_gained 0.15
mmpL5 776032 p.Gly817Trp missense_variant 0.1
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 778527 p.Thr127Ala missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800917 p.Thr37Ala missense_variant 0.13
fbiC 1303575 c.645G>A synonymous_variant 0.11
Rv1258c 1406769 p.Leu191Gln missense_variant 0.12
embR 1416469 c.879C>T synonymous_variant 0.11
atpE 1461031 c.-14A>T upstream_gene_variant 0.12
atpE 1461179 c.135G>T synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.67
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.4
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.33
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.33
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.4
rrl 1476693 n.3036G>A non_coding_transcript_exon_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918276 p.Val113Ile missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155402 p.Gly237Asp missense_variant 0.29
katG 2156075 p.Thr13Ala missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167967 c.2646A>C synonymous_variant 0.18
PPE35 2169745 p.Ala290Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288729 c.513G>A synonymous_variant 0.14
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ribD 2986844 c.6C>T synonymous_variant 0.12
ribD 2987538 p.Val234Met missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087917 c.1099delG frameshift_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612963 p.Ala52Thr missense_variant 0.12
fbiA 3641218 p.Val226Phe missense_variant 0.17
fbiB 3641828 c.294A>T synonymous_variant 0.2
rpoA 3878672 c.-165A>G upstream_gene_variant 0.17
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242534 p.Phe891Ser missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249341 p.Ala943Gly missense_variant 0.13
ethA 4326579 p.Gly299Ser missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0