TB-Profiler result

Run: ERR9901112
Summary

Run ID: ERR9901112

Sample name:

Date: 02-04-2023 13:32:28

Number of reads: 596293

Percentage reads mapped: 99.41

Strain: lineage4.3.4.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 0.99
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9033 p.Arg578Trp missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.89
gyrA 9721 p.Gly807Asp missense_variant 1.0
mshA 575220 c.-128G>A upstream_gene_variant 0.11
ccsA 620070 c.180C>T synonymous_variant 0.11
rpoB 760515 p.Trp237Arg missense_variant 0.13
rpoC 763986 p.Arg206Leu missense_variant 0.17
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765260 c.1893delC frameshift_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777984 p.Val166Ala missense_variant 0.1
mmpR5 779062 p.Gly25Arg missense_variant 0.14
mmpR5 779081 p.Ser31Thr missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801174 c.366T>G synonymous_variant 0.1
embR 1417078 c.270A>G synonymous_variant 0.11
embR 1417369 c.-22C>A upstream_gene_variant 0.1
atpE 1461281 c.237C>A synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673316 c.-124G>A upstream_gene_variant 0.1
inhA 1673496 c.-706G>A upstream_gene_variant 0.1
fabG1 1673545 p.Ala36Ser missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102024 p.Ala340Val missense_variant 0.13
ndh 2102044 c.999G>T synonymous_variant 0.14
PPE35 2169427 p.Pro396Ser missense_variant 0.11
PPE35 2170195 p.Tyr140Asn missense_variant 0.13
Rv1979c 2223123 c.42G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715435 c.-103C>T upstream_gene_variant 0.1
eis 2715492 c.-160G>C upstream_gene_variant 0.1
folC 2746660 c.938delT frameshift_variant 0.11
folC 2747479 p.Glu40Asp missense_variant 0.12
pepQ 2860145 p.Val92Met missense_variant 0.2
ribD 2987293 p.Thr152Met missense_variant 0.11
Rv2752c 3065419 p.Arg258Gln missense_variant 0.12
thyX 3067865 c.81C>T synonymous_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074373 p.Gln33His missense_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339747 c.630G>C synonymous_variant 0.12
Rv3083 3448377 c.-127T>C upstream_gene_variant 0.15
Rv3083 3449090 c.589delG frameshift_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
Rv3236c 3612760 c.357C>A synonymous_variant 0.22
fbiB 3641635 p.Ala34Val missense_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040095 p.Leu204Ile missense_variant 0.18
clpC1 4040720 c.-16G>A upstream_gene_variant 0.1
embC 4241141 p.Ile427Val missense_variant 0.11
embC 4242549 p.Val896Ala missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244534 c.1302T>C synonymous_variant 0.12
embB 4247555 c.1042C>T synonymous_variant 0.11
embB 4248554 p.Gly681Arg missense_variant 0.15
aftB 4268112 p.Ala242Val missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0