TB-Profiler result

Run: ERR028362
Summary

Run ID: ERR028362

Sample name:

Date: 31-03-2023 08:23:48

Number of reads: 369894

Percentage reads mapped: 88.34

Strain:

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
lineage5.1.1 West-Africa 1 AFRI_2;AFRI_3 RD711 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
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 0.8
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9566 c.2265C>T synonymous_variant 1.0
fgd1 491014 p.Thr78Pro missense_variant 0.5
fgd1 491742 c.960T>C synonymous_variant 0.86
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763280 c.-90C>T upstream_gene_variant 1.0
rpoC 764905 p.Phe512Leu missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
Rv1258c 1407240 p.Val34Gly missense_variant 0.25
Rv1258c 1407273 p.Asp23Val missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473360 n.1515T>G non_coding_transcript_exon_variant 0.38
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.29
rrl 1473839 n.182G>T non_coding_transcript_exon_variant 0.33
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.67
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.67
rrl 1473899 n.242A>G non_coding_transcript_exon_variant 0.67
inhA 1673338 c.-864G>A upstream_gene_variant 1.0
inhA 1674340 p.Ile47Val missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101921 c.1122G>A synonymous_variant 1.0
ndh 2102373 p.Met224Val missense_variant 0.25
ndh 2103112 c.-70G>T upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.89
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290062 c.-821G>A upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
Rv2752c 3064552 p.Arg547Pro missense_variant 0.17
thyA 3073806 c.666C>G synonymous_variant 0.33
ald 3087084 c.266delA frameshift_variant 1.0
ald 3087184 c.368_373delCCGACG disruptive_inframe_deletion 1.0
Rv3083 3449644 p.Ala381Thr missense_variant 0.86
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.67
Rv3236c 3611992 c.1125T>G synonymous_variant 0.67
fbiA 3640598 p.Val19Gly missense_variant 0.33
alr 3840932 c.489C>T synonymous_variant 1.0
rpoA 3878493 c.15G>A synonymous_variant 1.0
ddn 3986987 c.144G>T synonymous_variant 1.0
ddn 3987013 p.Gly57Ala missense_variant 0.25
ddn 3987180 p.Asp113Asn missense_variant 0.83
clpC1 4040824 c.-120C>T upstream_gene_variant 0.67
embC 4239843 c.-20A>C upstream_gene_variant 1.0
embC 4240646 p.Phe262Val missense_variant 0.22
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241138 p.Ala426Pro missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.33
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4245147 p.Pro639Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4268360 c.477A>C synonymous_variant 0.25
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethR 4326928 c.-621G>A upstream_gene_variant 1.0
ethA 4327103 p.Gly124Asp missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0