TB-Profiler result

Run: ERR4028196
Summary

Run ID: ERR4028196

Sample name:

Date: 01-04-2023 04:20:31

Number of reads: 955992

Percentage reads mapped: 99.85

Strain: lineage4.9

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.9 Euro-American (H37Rv-like) T1 None 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 6961 p.Gln574His missense_variant 0.1
gyrA 9127 p.Ala609Val missense_variant 0.12
gyrA 9626 c.2325T>C synonymous_variant 0.11
fgd1 490773 c.-10G>A upstream_gene_variant 0.11
mshA 576193 c.846T>A synonymous_variant 0.11
ccsA 620450 c.562delG frameshift_variant 0.1
rpoB 759681 c.-126C>T upstream_gene_variant 0.12
rpoB 761367 p.Glu521* stop_gained 0.18
rpoB 762200 c.2394C>T synonymous_variant 0.12
rpoC 765002 c.1633C>T synonymous_variant 0.11
rpoC 765098 p.Pro577Ser missense_variant 0.14
rpoC 765392 p.Glu675* stop_gained 0.15
rpoC 767177 p.Ile1270Phe missense_variant 0.12
mmpL5 775730 p.Asp917Glu missense_variant 0.15
mmpL5 776172 c.2308delG frameshift_variant 0.1
mmpL5 776621 c.1860G>A synonymous_variant 0.11
rplC 800636 c.-173C>T upstream_gene_variant 0.13
Rv1258c 1407076 p.Val89Ile missense_variant 0.17
Rv1258c 1407112 p.Val77Leu missense_variant 0.12
embR 1416509 p.Arg280Leu missense_variant 0.18
embR 1416861 c.486delT frameshift_variant 0.13
atpE 1460882 c.-163T>C upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833763 c.222C>T synonymous_variant 0.1
rpsA 1834263 p.Ser241* stop_gained 0.1
tlyA 1918297 p.Trp120Gly missense_variant 0.15
PPE35 2167650 c.2963A>G splice_region_variant&stop_retained_variant 0.12
PPE35 2168465 c.2148C>A synonymous_variant 0.12
PPE35 2169458 c.1155C>T synonymous_variant 0.15
PPE35 2170371 p.Thr81Val missense_variant 0.11
PPE35 2170385 c.228G>T synonymous_variant 0.11
PPE35 2170392 p.Gly74Ala missense_variant 0.12
PPE35 2170400 c.213G>C synonymous_variant 0.12
Rv1979c 2222597 p.Val190Leu missense_variant 0.11
Rv1979c 2222819 p.Thr116Ser missense_variant 0.13
Rv1979c 2223237 c.-73C>T upstream_gene_variant 0.11
eis 2714686 p.Ala216Glu missense_variant 0.1
Rv2752c 3064515 c.1677A>T stop_lost&splice_region_variant 0.12
thyX 3067918 p.Gln10Glu missense_variant 0.17
thyA 3074489 c.-18G>A upstream_gene_variant 1.0
ald 3087211 p.Ala131Val missense_variant 0.11
Rv3083 3449118 c.615G>A synonymous_variant 0.11
fprA 3474767 p.Gly254Asp missense_variant 0.11
fprA 3474942 c.936G>A synonymous_variant 0.15
fbiA 3640832 p.Val97Ala missense_variant 0.11
fbiB 3641193 c.-342G>T upstream_gene_variant 0.11
fbiB 3641624 c.90C>T synonymous_variant 0.12
alr 3841181 c.240C>T synonymous_variant 0.14
alr 3841473 c.-53G>T upstream_gene_variant 0.12
clpC1 4039473 p.Arg411Leu missense_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.11
clpC1 4040021 c.684A>C synonymous_variant 0.11
clpC1 4040024 c.681A>G synonymous_variant 0.11
clpC1 4040027 c.678C>G synonymous_variant 0.11
clpC1 4040032 p.Val225Ile missense_variant 0.11
clpC1 4040144 c.561G>C synonymous_variant 0.1
embC 4240696 c.834C>T synonymous_variant 0.11
embC 4241545 c.1683T>C synonymous_variant 0.11
embB 4246942 c.429G>T synonymous_variant 0.17
embB 4249625 p.Gly1038Arg missense_variant 0.11
ubiA 4269611 p.Val75Met missense_variant 0.11