TB-Profiler result

Run: ERR7801182
Summary

Run ID: ERR7801182

Sample name:

Date: 02-04-2023 05:58:08

Number of reads: 715880

Percentage reads mapped: 99.64

Strain: lineage4.3.4.2

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 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 5719 c.484delG frameshift_variant 0.18
gyrB 5793 p.Tyr185Phe missense_variant 0.18
gyrB 5967 p.Pro243Gln missense_variant 0.17
gyrB 6140 p.Val301Leu missense_variant 1.0
gyrB 6341 p.Glu368* stop_gained 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7568 c.267C>T synonymous_variant 0.15
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8015 p.Gln238His missense_variant 0.25
gyrA 8102 c.801C>A synonymous_variant 0.17
gyrA 8353 p.Gly351Val missense_variant 0.18
gyrA 8937 p.Gly546Cys missense_variant 0.2
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491013 c.231C>T synonymous_variant 0.18
fgd1 491368 p.Ser196Thr missense_variant 0.14
fgd1 491793 c.1011A>T stop_lost&splice_region_variant 0.12
ccsA 620347 p.Gly153Arg missense_variant 0.22
rpoB 760864 p.Gly353Val missense_variant 0.22
rpoB 761258 p.Glu484Asp missense_variant 0.12
rpoB 761359 p.Val518Asp missense_variant 0.17
rpoB 761495 p.Glu563Asp missense_variant 0.12
rpoC 764901 p.Ala511Val missense_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765010 p.Leu547Phe missense_variant 0.15
rpoC 765087 p.Pro573Gln missense_variant 0.14
rpoC 765121 c.1752G>T synonymous_variant 0.14
rpoC 765197 p.Gly610Cys missense_variant 0.13
rpoC 765343 c.1974G>T synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776095 p.Arg796Ser missense_variant 0.2
mmpR5 779070 p.Phe27Leu missense_variant 0.17
mmpR5 779418 p.Leu143Phe missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303318 p.Asp130Tyr missense_variant 0.17
fbiC 1303353 p.Lys141Asn missense_variant 0.15
fbiC 1303420 p.Glu164* stop_gained 0.17
embR 1416614 p.Pro245Gln missense_variant 0.17
embR 1416898 c.450C>A synonymous_variant 0.17
embR 1416985 c.363G>T synonymous_variant 0.15
embR 1417526 c.-179G>T upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474416 n.759C>A non_coding_transcript_exon_variant 0.19
rrl 1474570 n.913G>T non_coding_transcript_exon_variant 0.18
rrl 1474739 n.1082G>T non_coding_transcript_exon_variant 0.17
rrl 1474762 n.1105G>T non_coding_transcript_exon_variant 0.17
rrl 1475574 n.1917C>T non_coding_transcript_exon_variant 0.25
rrl 1475578 n.1921C>A non_coding_transcript_exon_variant 0.22
rrl 1476341 n.2684G>T non_coding_transcript_exon_variant 0.22
rrl 1476518 n.2861G>T non_coding_transcript_exon_variant 0.18
rrl 1476698 n.3041G>T non_coding_transcript_exon_variant 0.15
inhA 1674072 c.-130C>A upstream_gene_variant 0.2
rpsA 1834019 p.Asp160Tyr missense_variant 0.15
rpsA 1834106 p.Ala189Ser missense_variant 0.15
rpsA 1834132 p.Glu197Asp missense_variant 0.17
rpsA 1834588 c.1047C>A synonymous_variant 0.25
rpsA 1834762 p.Phe407Leu missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102515 c.528C>A synonymous_variant 0.18
katG 2153967 p.Asp715Glu missense_variant 0.22
katG 2154030 c.2082G>T synonymous_variant 0.25
katG 2154581 p.Asp511Tyr missense_variant 0.18
katG 2154646 p.Arg489Leu missense_variant 0.22
katG 2155044 p.Lys356Asn missense_variant 0.18
katG 2155365 c.747C>T synonymous_variant 0.14
PPE35 2167893 p.Ser907* stop_gained 0.29
PPE35 2168015 c.2598C>A synonymous_variant 0.5
PPE35 2168381 p.Phe744Leu missense_variant 0.29
PPE35 2168786 c.1827G>T synonymous_variant 0.25
PPE35 2169671 c.942C>A synonymous_variant 0.18
PPE35 2170026 p.Pro196Gln missense_variant 0.15
PPE35 2170144 p.Gly157Trp missense_variant 0.14
PPE35 2170378 p.Ala79Ser missense_variant 0.12
PPE35 2170716 c.-104A>G upstream_gene_variant 0.11
Rv1979c 2222333 p.Gly278* stop_gained 0.5
Rv1979c 2222409 c.756G>T synonymous_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289771 c.-530C>A upstream_gene_variant 0.13
pncA 2289841 c.-600G>T upstream_gene_variant 0.14
kasA 2518338 p.Leu75Arg missense_variant 0.11
folC 2746239 p.Pro454Thr missense_variant 0.14
folC 2746258 c.1341C>T synonymous_variant 0.14
folC 2746983 p.Gly206Cys missense_variant 0.14
ribD 2987589 p.Leu251Met missense_variant 0.17
Rv2752c 3065222 p.Arg324Ser missense_variant 0.17
Rv2752c 3066151 p.Gly14Val missense_variant 0.15
thyX 3067530 p.Ala139Asp missense_variant 0.18
thyX 3067544 p.Glu134Asp missense_variant 0.2
thyX 3067769 c.177C>A synonymous_variant 0.13
thyA 3073809 p.Ser221Arg missense_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074043 c.429G>T synonymous_variant 0.17
thyA 3074049 p.Met141Ile missense_variant 0.17
thyA 3074093 p.Arg127Ser missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086910 p.His31Asn missense_variant 0.17
Rv3083 3448629 c.126C>T synonymous_variant 0.2
Rv3083 3449067 c.564G>T synonymous_variant 0.15
Rv3083 3449141 p.Ser213Tyr missense_variant 0.14
Rv3083 3449256 p.Gln251His missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475180 p.Gly392Cys missense_variant 0.14
whiB7 3568460 p.Gly74Cys missense_variant 0.2
whiB7 3568546 p.Ser45Ile missense_variant 0.12
whiB7 3568820 c.-141G>T upstream_gene_variant 0.29
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
Rv3236c 3612196 c.921C>A synonymous_variant 0.13
Rv3236c 3612213 p.Ala302Ser missense_variant 0.14
Rv3236c 3612501 p.Val206Ile missense_variant 0.22
Rv3236c 3612537 p.Gly194Trp missense_variant 0.15
Rv3236c 3612559 c.558G>T synonymous_variant 0.17
Rv3236c 3612894 c.223C>T synonymous_variant 0.15
fbiA 3640636 p.Ser32Pro missense_variant 0.11
fbiB 3641412 c.-123G>T upstream_gene_variant 0.17
fbiA 3641422 p.Asp294Tyr missense_variant 0.17
fbiB 3641464 c.-71C>T upstream_gene_variant 0.15
fbiA 3641515 p.Asp325Tyr missense_variant 0.18
fbiB 3641588 c.54C>A synonymous_variant 0.17
fbiB 3642807 p.Ala425Ser missense_variant 0.25
rpoA 3877716 c.792C>A synonymous_variant 0.16
ddn 3986812 c.-32T>C upstream_gene_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039784 c.921C>A synonymous_variant 0.22
clpC1 4040359 p.Gly116Ser missense_variant 0.13
panD 4043876 p.Leu136Ile missense_variant 0.12
panD 4044145 c.136delA frameshift_variant 0.14
embC 4241442 p.Pro527His missense_variant 0.2
embC 4241458 c.1596C>A synonymous_variant 0.2
embC 4242236 p.Ala792Ser missense_variant 0.13
embC 4242392 p.Asp844Tyr missense_variant 0.22
embC 4242420 p.Ser853Ile missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 0.95
embA 4243389 p.Gly53Cys missense_variant 0.15
embA 4244333 c.1101G>A synonymous_variant 0.13
embA 4244860 p.Gly543Val missense_variant 0.2
embB 4247748 p.Ser412* stop_gained 0.17
embB 4248984 p.Pro824His missense_variant 0.13
embB 4249249 c.2736C>A synonymous_variant 0.15
embB 4249778 c.3267delG frameshift_variant 0.17
aftB 4267096 p.Pro581Thr missense_variant 0.14
aftB 4268589 p.Ala83Glu missense_variant 0.18
ubiA 4269632 p.Ala68Ser missense_variant 0.15
ethA 4326209 p.Pro422Gln missense_variant 0.14
ethA 4326288 p.Asp396Tyr missense_variant 0.17
ethR 4326580 c.-969G>A upstream_gene_variant 0.29
ethA 4326652 p.Glu274Asp missense_variant 0.14
ethA 4327524 c.-51A>T upstream_gene_variant 0.13
ethA 4327557 c.-84G>T upstream_gene_variant 0.14
ethA 4328019 c.-546G>A upstream_gene_variant 1.0
ethR 4328190 c.644delA frameshift_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338698 c.-177C>A upstream_gene_variant 0.18
gid 4407599 p.Val202Met missense_variant 0.15
gid 4408156 p.Leu16Arg missense_variant 1.0