TB-Profiler result

Run: ERR1750943
Summary

Run ID: ERR1750943

Sample name:

Date: 31-03-2023 15:01:04

Number of reads: 669095

Percentage reads mapped: 86.71

Strain: lineage4

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
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.3
fgd1 491014 p.Thr78Pro missense_variant 0.4
mshA 575249 c.-99G>A upstream_gene_variant 0.2
mshA 575252 c.-96C>A upstream_gene_variant 0.2
mshA 576094 c.747G>T synonymous_variant 0.12
rpoB 761739 p.Glu645* stop_gained 0.17
rpoC 763973 p.Glu202* stop_gained 0.25
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 767025 p.Ser1219* stop_gained 0.17
rpoC 767098 c.3731delA frameshift_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775965 p.Ala839Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
rpsL 781363 c.-197T>G upstream_gene_variant 0.5
rpsL 781670 c.111G>C synonymous_variant 1.0
rpsL 781682 c.123T>C synonymous_variant 1.0
rpsL 781685 c.126G>C synonymous_variant 1.0
rpsL 781706 c.147T>G synonymous_variant 0.67
rpsL 781709 c.150G>C synonymous_variant 0.67
rpsL 781715 c.156T>C synonymous_variant 0.67
rpsL 781718 c.159C>T synonymous_variant 0.67
rpsL 781721 c.162C>T synonymous_variant 0.67
rpsL 781725 p.Lys56Arg missense_variant 0.67
rpsL 781728 c.169T>C synonymous_variant 0.67
rpsL 781733 c.174G>C synonymous_variant 0.67
rpsL 781736 c.177T>C synonymous_variant 0.67
rpsL 781737 p.Gln60Ser missense_variant 0.67
rpsL 781751 c.192G>C synonymous_variant 0.67
rpsL 781754 c.195G>C synonymous_variant 0.67
rpsL 781760 c.201T>C synonymous_variant 1.0
rpsL 781769 c.210G>A synonymous_variant 1.0
rpsL 781802 c.243G>C synonymous_variant 1.0
rpsL 781805 c.246G>C synonymous_variant 1.0
fbiC 1304223 c.1293G>T synonymous_variant 0.2
embR 1416959 p.Arg130Gln missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.75
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.5
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 1.0
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 1.0
rrs 1472446 n.601_602insTCTGCAA non_coding_transcript_exon_variant 1.0
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 1.0
rrs 1472463 n.618G>A non_coding_transcript_exon_variant 1.0
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.67
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 1.0
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.67
rrs 1472497 n.652G>A non_coding_transcript_exon_variant 0.67
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.67
rrs 1472859 n.1014G>T non_coding_transcript_exon_variant 0.67
rrs 1472873 n.1028C>T non_coding_transcript_exon_variant 0.67
rrs 1472874 n.1029C>T non_coding_transcript_exon_variant 0.67
rrs 1472875 n.1030T>G non_coding_transcript_exon_variant 0.67
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.67
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 1.0
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 1.0
rrs 1472960 n.1115G>A non_coding_transcript_exon_variant 1.0
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 1.0
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 1.0
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 1.0
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 1.0
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 1.0
rrs 1472986 n.1141C>T non_coding_transcript_exon_variant 1.0
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 1.0
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 1.0
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 1.0
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 1.0
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 1.0
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 1.0
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 1.0
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrs 1473289 n.1444T>C non_coding_transcript_exon_variant 0.67
rrl 1475075 n.1418A>C non_coding_transcript_exon_variant 0.67
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.33
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.4
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.33
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.33
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.33
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.33
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.4
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.4
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.4
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.4
rrl 1476032 n.2375C>G non_coding_transcript_exon_variant 0.4
rrl 1476033 n.2376T>G non_coding_transcript_exon_variant 0.4
rrl 1476034 n.2377C>T non_coding_transcript_exon_variant 0.4
rrl 1476045 n.2388G>A non_coding_transcript_exon_variant 0.4
rrl 1476046 n.2389G>C non_coding_transcript_exon_variant 0.5
rrl 1476047 n.2390G>C non_coding_transcript_exon_variant 0.4
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.4
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.33
rrl 1476079 n.2422G>A non_coding_transcript_exon_variant 0.33
rrl 1476080 n.2423T>C non_coding_transcript_exon_variant 0.33
rrl 1476081 n.2424A>T non_coding_transcript_exon_variant 0.33
rrl 1476082 n.2425T>C non_coding_transcript_exon_variant 0.33
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.33
rrl 1476087 n.2430C>T non_coding_transcript_exon_variant 0.33
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.29
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.29
rrl 1476104 n.2448delG non_coding_transcript_exon_variant 0.33
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.33
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.33
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.4
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 1.0
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 1.0
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.8
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.86
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.71
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.71
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.86
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.86
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.83
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.71
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.86
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.71
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.71
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.71
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.62
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.8
inhA 1673592 c.-610G>T upstream_gene_variant 0.4
inhA 1674304 p.Gln35Lys missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155421 p.Asn231Asp missense_variant 0.25
PPE35 2167859 c.2754T>G synonymous_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289511 c.-270T>G upstream_gene_variant 0.4
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2725942 c.-251C>T upstream_gene_variant 0.29
ahpC 2725955 c.-238C>T upstream_gene_variant 0.25
folC 2746370 p.Arg410Leu missense_variant 0.25
folC 2747325 c.273delG frameshift_variant 0.18
pepQ 2859733 p.Tyr229Cys missense_variant 0.25
ald 3087814 p.Ala332Glu missense_variant 0.18
fbiD 3339073 c.-45G>T upstream_gene_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
Rv3236c 3612916 c.201G>T synonymous_variant 0.29
fbiB 3642465 p.Asp311Asn missense_variant 0.17
alr 3841499 c.-79C>A upstream_gene_variant 0.29
rpoA 3878528 c.-21T>A upstream_gene_variant 0.29
clpC1 4038890 c.1815G>A synonymous_variant 0.5
clpC1 4038911 c.1794G>T synonymous_variant 1.0
clpC1 4038917 c.1788C>T synonymous_variant 1.0
clpC1 4038923 c.1782A>G synonymous_variant 1.0
clpC1 4038926 c.1779G>T synonymous_variant 1.0
clpC1 4038941 c.1764G>C synonymous_variant 0.67
clpC1 4038944 c.1761C>T synonymous_variant 0.67
clpC1 4038953 c.1752A>G synonymous_variant 0.67
clpC1 4038956 c.1749T>C synonymous_variant 0.67
clpC1 4038965 c.1740T>C synonymous_variant 0.5
clpC1 4038971 c.1734T>C synonymous_variant 0.5
clpC1 4038974 c.1731T>C synonymous_variant 0.5
clpC1 4038980 c.1725C>T synonymous_variant 0.5
clpC1 4038986 p.Asp573Glu missense_variant 0.5
clpC1 4038989 c.1716T>C synonymous_variant 0.5
clpC1 4038997 c.1708T>C synonymous_variant 0.5
clpC1 4039004 c.1701C>G synonymous_variant 0.5
clpC1 4039019 c.1686G>C synonymous_variant 0.5
clpC1 4039022 c.1683A>G synonymous_variant 0.5
clpC1 4040303 c.402G>T synonymous_variant 0.67
clpC1 4040307 p.Arg133Leu missense_variant 0.67
embC 4241554 c.1692G>A synonymous_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244219 c.987C>A synonymous_variant 0.15
embA 4244459 c.1227G>T synonymous_variant 0.15
embA 4244484 p.Thr418Ser missense_variant 0.14
embB 4247108 p.Gly199Trp missense_variant 0.12
embB 4247503 c.990C>T synonymous_variant 0.4
embB 4249683 p.Trp1057Leu missense_variant 0.25