TB-Profiler result

Run: ERR1200625
Summary

Run ID: ERR1200625

Sample name:

Date: 13-08-2022 02:35:27

Number of reads: 8703990

Percentage reads mapped: 98.38

Strain: lineage7

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
lineage7 Lineage 7 None 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8876 c.1575C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.32
rpoC 762836 c.-534C>G upstream_gene_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764013 p.Glu215Ala missense_variant 1.0
rpoC 764751 p.Val461Gly missense_variant 0.3
rpoC 766955 p.Glu1196Lys missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775915 p.Ala856Thr missense_variant 0.99
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776202 p.Gly760Ala missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.98
rpsL 781488 c.-72G>A upstream_gene_variant 1.0
rplC 800997 p.Asn63Lys missense_variant 0.13
fbiC 1305129 c.2199C>T synonymous_variant 1.0
Rv1258c 1406358 p.Ile328Thr missense_variant 0.17
Rv1258c 1406750 c.591C>A synonymous_variant 0.15
embR 1416977 p.His124Arg missense_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471665 n.-180delA upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.21
rrs 1473360 n.1515T>G non_coding_transcript_exon_variant 0.31
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.17
rrl 1474959 n.1303_1304insAC non_coding_transcript_exon_variant 1.0
fabG1 1673449 p.Thr4Pro missense_variant 0.35
inhA 1674892 p.Asn231Asp missense_variant 0.17
rpsA 1834916 p.Thr459Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918281 c.342A>C synonymous_variant 1.0
ndh 2102218 c.825C>T synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.19
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169232 p.Thr461Ala missense_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.18
PPE35 2170156 p.Ala153Pro missense_variant 0.19
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290023 c.-782A>C upstream_gene_variant 0.33
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518891 c.777C>A synonymous_variant 0.21
eis 2714366 p.Val323Leu missense_variant 0.16
ahpC 2725954 c.-239C>T upstream_gene_variant 0.32
ahpC 2726756 c.564C>G synonymous_variant 0.22
folC 2746186 c.1413G>C synonymous_variant 0.23
ribD 2987392 p.Arg185Pro missense_variant 0.15
Rv2752c 3064741 p.Gly484Ala missense_variant 0.21
Rv2752c 3065265 c.927C>G synonymous_variant 0.17
Rv2752c 3065880 c.312C>T synonymous_variant 1.0
thyX 3067995 c.-50A>C upstream_gene_variant 0.17
thyA 3074172 c.300G>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448540 p.Gly13Ser missense_variant 1.0
Rv3083 3448929 p.Tyr142* stop_gained 0.12
Rv3083 3449058 p.Ser185Arg missense_variant 0.29
Rv3083 3449673 p.Tyr390* stop_gained 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474601 p.Arg199Gly missense_variant 0.16
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.3
fbiB 3641955 p.Gly141Arg missense_variant 0.21
rpoA 3878040 c.468T>C synonymous_variant 1.0
rpoA 3878641 c.-135delG upstream_gene_variant 0.17
ddn 3987013 p.Gly57Ala missense_variant 0.26
clpC1 4039363 p.Ala448Pro missense_variant 0.19
clpC1 4039931 p.Gly258Val missense_variant 0.18
embC 4239870 p.Thr3Asn missense_variant 0.19
embC 4240153 c.291G>A synonymous_variant 1.0
embC 4240435 p.Tyr191* stop_gained 0.17
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240922 p.Thr354Ala missense_variant 0.98
embC 4241056 c.1194C>G synonymous_variant 0.32
embC 4241456 p.Ala532Pro missense_variant 0.33
embC 4241783 p.Trp641Gly missense_variant 0.25
embC 4242369 p.Arg836Pro missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.17
embA 4243977 p.Ala249Pro missense_variant 0.4
embA 4244375 c.1143C>G synonymous_variant 0.24
embA 4245946 p.Ile905Thr missense_variant 0.16
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248073 c.1560C>T synonymous_variant 0.99
embB 4248725 p.Ser738Ala missense_variant 0.22
aftB 4267649 c.1188T>C synonymous_variant 1.0
aftB 4268254 p.Leu195Val missense_variant 0.16
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.19
ethA 4328371 c.-898C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338649 c.-128C>A upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408329 c.-127C>G upstream_gene_variant 0.19