TB-Profiler result

Run: ERR4818526
Summary

Run ID: ERR4818526

Sample name:

Date: 01-04-2023 15:36:27

Number of reads: 284410

Percentage reads mapped: 98.21

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 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 6077 p.Gly280Cys missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9645 p.Gly782Ser missense_variant 0.5
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761465 c.1659G>A synonymous_variant 1.0
rpoB 761665 c.1862delG frameshift_variant 0.25
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764293 c.924G>C synonymous_variant 1.0
rpoC 764553 p.Gly395Ala missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776499 p.Gly661Glu missense_variant 0.22
mmpL5 777327 p.Ala385Gly missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302970 p.Ser14Gly missense_variant 0.25
embR 1417065 p.Ala95Thr missense_variant 1.0
atpE 1461111 p.Gly23Cys missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 1.0
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 1.0
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 1.0
rpsA 1833970 c.429G>C synonymous_variant 0.4
rpsA 1833979 c.438T>C synonymous_variant 0.29
rpsA 1833991 c.450C>G synonymous_variant 0.25
rpsA 1834000 c.459G>C synonymous_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156106 c.6C>A synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168529 p.Gly695Val missense_variant 0.4
PPE35 2170064 c.549G>C synonymous_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
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
pepQ 2859752 p.Gly223Cys missense_variant 0.22
thyX 3067199 c.747A>G synonymous_variant 0.17
thyA 3074654 c.-184delG upstream_gene_variant 0.67
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474094 p.Glu30Lys missense_variant 0.67
fprA 3474726 c.720G>A synonymous_variant 0.5
ddn 3986932 p.Arg30Leu missense_variant 0.25
panD 4044107 p.Ala59Thr missense_variant 0.25
embC 4240081 c.219G>A synonymous_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242610 c.-623A>G upstream_gene_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243440 c.208C>T synonymous_variant 1.0
embB 4248549 p.Ala679Val missense_variant 0.17
embB 4249242 p.Leu910Pro missense_variant 0.17
embB 4249381 c.2868A>T synonymous_variant 0.18
aftB 4268781 p.Trp19Leu missense_variant 0.33
ethA 4326753 p.Lys241Glu missense_variant 0.17
ethR 4327335 c.-214A>G upstream_gene_variant 0.33
ethA 4328379 c.-906C>T upstream_gene_variant 1.0
ethA 4328412 c.-939G>T upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0