TB-Profiler result

Run: ERR4815714
Summary

Run ID: ERR4815714

Sample name:

Date: 01-04-2023 14:01:18

Number of reads: 1157199

Percentage reads mapped: 97.89

Strain: lineage4.1.2.1

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 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576288 p.Arg314Leu missense_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777157 c.1324C>A synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304847 c.1917C>A synonymous_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471985 n.140T>C non_coding_transcript_exon_variant 0.17
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.17
rrs 1472026 n.182_188delCACGGGA non_coding_transcript_exon_variant 0.4
rrs 1472037 n.192_193insCTTTAG non_coding_transcript_exon_variant 0.36
rrs 1472057 n.212C>T non_coding_transcript_exon_variant 0.36
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.36
rrs 1472062 n.217G>T non_coding_transcript_exon_variant 0.36
rrs 1472069 n.224G>A non_coding_transcript_exon_variant 0.42
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.38
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.43
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.33
rrs 1472138 n.293C>A non_coding_transcript_exon_variant 0.33
rrs 1472147 n.302G>T non_coding_transcript_exon_variant 0.33
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.33
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.33
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.8
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.6
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.6
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.6
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.6
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.6
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.5
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.6
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.6
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.6
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.4
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.67
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.67
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.67
rrs 1472836 n.991G>A non_coding_transcript_exon_variant 0.4
rrs 1472840 n.995A>C non_coding_transcript_exon_variant 0.4
rrs 1472843 n.998_999insT non_coding_transcript_exon_variant 0.33
rrs 1472846 n.1002delG non_coding_transcript_exon_variant 0.33
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.33
rrs 1472850 n.1005T>C non_coding_transcript_exon_variant 0.33
rrs 1472855 n.1011_1012insGT non_coding_transcript_exon_variant 0.33
rrs 1472874 n.1029C>T non_coding_transcript_exon_variant 0.33
rrs 1472875 n.1030T>G non_coding_transcript_exon_variant 0.33
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.4
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474253 n.596A>T non_coding_transcript_exon_variant 1.0
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 1.0
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 1.0
rrl 1474293 n.637_650delCCTCTCCGGAGGAG non_coding_transcript_exon_variant 1.0
rrl 1474309 n.652G>T non_coding_transcript_exon_variant 0.5
rrl 1474311 n.654_655insT non_coding_transcript_exon_variant 0.5
rrl 1474351 n.694G>C non_coding_transcript_exon_variant 0.5
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.5
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.5
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474798 n.1141C>G non_coding_transcript_exon_variant 1.0
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 1.0
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 1.0
rrl 1474825 n.1168G>A non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 1.0
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1475877 n.2220C>G non_coding_transcript_exon_variant 0.6
rrl 1475878 n.2221T>A non_coding_transcript_exon_variant 0.6
rrl 1475879 n.2222T>C non_coding_transcript_exon_variant 0.6
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.6
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.6
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.6
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.5
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.5
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.5
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.5
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.5
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.5
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.5
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.4
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.4
rrl 1476298 n.2641C>A non_coding_transcript_exon_variant 0.4
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.4
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.4
rrl 1476307 n.2650A>T non_coding_transcript_exon_variant 0.67
rrl 1476309 n.2652G>T non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102506 c.537C>T synonymous_variant 1.0
PPE35 2170371 p.Thr81Ile missense_variant 0.12
PPE35 2170392 p.Gly74Ala missense_variant 0.15
PPE35 2170400 c.213G>C synonymous_variant 0.15
PPE35 2170412 c.201G>A synonymous_variant 0.18
PPE35 2170415 c.198A>G synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726341 p.Val50Gly missense_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642047 c.513G>C synonymous_variant 0.1
rpoA 3878704 c.-197C>T upstream_gene_variant 0.17
embC 4241340 p.Phe493Tyr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244961 p.Phe577Leu missense_variant 0.1
embA 4245786 p.Ala852Thr missense_variant 1.0
embB 4247656 c.1143A>G synonymous_variant 0.1
embB 4247817 p.Val435Ala missense_variant 0.11
aftB 4267851 p.Gln329Arg missense_variant 0.14
ubiA 4269380 p.Val152Ile missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0