TB-Profiler result

Run: SRR3732697
Summary

Run ID: SRR3732697

Sample name:

Date: 04-04-2023 05:37:55

Number of reads: 636606

Percentage reads mapped: 99.62

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.98
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 8042 c.741C>T synonymous_variant 0.33
gyrA 8622 p.Arg441Trp missense_variant 0.25
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575445 p.Pro33Gln missense_variant 0.18
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620262 c.372C>A synonymous_variant 0.17
rpoB 760023 p.Asp73His missense_variant 0.4
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761192 c.1386C>A synonymous_variant 0.2
rpoB 761946 p.Leu714Met missense_variant 0.25
rpoB 762780 p.Gly992Cys missense_variant 0.4
rpoB 762916 p.Ala1037Val missense_variant 0.22
rpoC 763813 c.444C>T synonymous_variant 0.17
rpoC 764902 c.1533C>A synonymous_variant 0.18
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765343 c.1974G>T synonymous_variant 0.14
rpoC 765354 p.Trp662* stop_gained 0.17
rpoC 765424 p.Asn685Lys missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778636 c.-156C>A upstream_gene_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302806 c.-125C>T upstream_gene_variant 0.2
fbiC 1302983 p.Pro18Leu missense_variant 0.17
fbiC 1303098 c.168C>A synonymous_variant 0.12
fbiC 1303702 p.Gly258Cys missense_variant 0.33
fbiC 1303839 p.Met303Ile missense_variant 0.18
fbiC 1304118 c.1188C>T synonymous_variant 0.12
fbiC 1304670 c.1740G>A synonymous_variant 0.22
fbiC 1305208 p.Gly760Trp missense_variant 0.2
Rv1258c 1407447 c.-107C>T upstream_gene_variant 0.22
embR 1417120 c.228G>T synonymous_variant 0.17
embR 1417315 c.33C>A synonymous_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918371 c.432C>T synonymous_variant 0.15
tlyA 1918541 p.Pro201Gln missense_variant 0.18
ndh 2102108 p.Pro312His missense_variant 0.29
katG 2155004 p.Gly370Trp missense_variant 0.22
PPE35 2168399 p.Glu738Asp missense_variant 0.67
PPE35 2169041 c.1572G>A synonymous_variant 1.0
Rv1979c 2222577 c.588G>T synonymous_variant 0.2
Rv1979c 2222927 p.Ala80Ser missense_variant 0.5
pncA 2289155 c.87C>T synonymous_variant 0.18
pncA 2289456 c.-215G>T upstream_gene_variant 0.22
pncA 2289560 c.-319T>C upstream_gene_variant 0.14
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726195 c.5delC frameshift_variant 0.33
folC 2746659 p.Gly314Cys missense_variant 0.4
folC 2747345 p.Leu85Pro missense_variant 0.17
folC 2747650 c.-52G>A upstream_gene_variant 0.29
pepQ 2859680 c.739C>T synonymous_variant 0.22
pepQ 2859737 p.Gly228Trp missense_variant 0.15
ribD 2987420 c.582C>T synonymous_variant 0.18
Rv2752c 3065513 p.Arg227Trp missense_variant 0.4
Rv2752c 3066324 c.-133G>T upstream_gene_variant 0.4
Rv2752c 3067130 c.-939G>T upstream_gene_variant 0.15
thyX 3067818 p.Cys43Phe missense_variant 0.14
thyX 3067838 c.108C>A synonymous_variant 0.14
thyA 3074398 p.Gly25Val missense_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087317 c.498C>T synonymous_variant 0.25
fbiD 3339694 p.Ala193Ser missense_variant 0.17
Rv3083 3449289 c.786C>A synonymous_variant 0.18
Rv3083 3449715 c.1212C>A synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474827 p.Ser274Tyr missense_variant 0.15
fprA 3475078 p.Gly358Arg missense_variant 0.25
fprA 3475094 p.Gly363Glu missense_variant 0.33
Rv3236c 3612264 p.Gly285* stop_gained 0.2
Rv3236c 3612331 c.786G>T synonymous_variant 0.17
fbiA 3640779 p.Trp79Cys missense_variant 0.18
fbiA 3640792 p.Glu84* stop_gained 0.22
rpoA 3878235 p.Glu91Asp missense_variant 0.22
clpC1 4038600 p.Lys702Arg missense_variant 0.4
clpC1 4038947 p.His586Gln missense_variant 0.4
clpC1 4039315 p.Arg464Ser missense_variant 0.22
clpC1 4039602 p.Ala368Val missense_variant 0.18
embC 4239791 c.-72C>A upstream_gene_variant 0.2
embC 4239823 c.-40C>A upstream_gene_variant 0.25
embC 4240213 c.351C>T synonymous_variant 0.22
embC 4240805 p.Arg315Ser missense_variant 0.17
embC 4240861 c.999G>T synonymous_variant 0.15
embC 4241524 p.Lys554Asn missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242855 p.Gly998Val missense_variant 0.17
embA 4243456 p.Pro75His missense_variant 0.2
embA 4245034 p.Arg601His missense_variant 0.17
embA 4245501 p.Ala757Thr missense_variant 0.13
embB 4245593 c.-921C>A upstream_gene_variant 0.2
embA 4245918 p.Trp896Arg missense_variant 0.18
embB 4246980 p.Gly156Ala missense_variant 0.2
embB 4247044 c.531C>T synonymous_variant 0.22
embB 4247426 p.Gly305Ser missense_variant 0.22
aftB 4267984 p.Arg285Cys missense_variant 0.5
aftB 4268471 c.366G>T synonymous_variant 0.25
ethA 4326522 p.Glu318* stop_gained 0.5
ethA 4326645 p.Asp277Tyr missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407747 c.456G>A synonymous_variant 0.22