TB-Profiler result

Run: ERR4820650
Summary

Run ID: ERR4820650

Sample name:

Date: 01-04-2023 16:47:59

Number of reads: 1000948

Percentage reads mapped: 70.22

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406966 p.Asp125Glu missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.11
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.12
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.12
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.12
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.13
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.16
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.4
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.42
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.39
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.39
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.38
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.39
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.33
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.38
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.36
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.37
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.36
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.4
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.38
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.39
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.39
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.39
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.31
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.23
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.2
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.11
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.34
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.21
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.12
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.14
inhA 1674743 p.Lys181Arg missense_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.12
PPE35 2167865 c.2748G>C synonymous_variant 0.18
PPE35 2167868 c.2745A>C synonymous_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.11
PPE35 2167967 c.2646A>C synonymous_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.12
PPE35 2169910 p.Asn235Tyr missense_variant 0.13
PPE35 2170066 p.Ala183Thr missense_variant 0.2
PPE35 2170220 c.393C>G synonymous_variant 0.11
PPE35 2170229 c.384A>G synonymous_variant 0.1
PPE35 2170238 c.375T>G synonymous_variant 0.11
PPE35 2170385 c.228G>T synonymous_variant 0.22
PPE35 2170392 p.Gly74Ala missense_variant 0.22
PPE35 2170400 c.213G>C synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518879 c.765A>G synonymous_variant 0.12
kasA 2518882 c.768C>A synonymous_variant 0.12
ahpC 2725921 c.-272A>T upstream_gene_variant 1.0
Rv2752c 3065446 p.Ile249Ser missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449049 c.546C>G synonymous_variant 0.12
Rv3083 3449058 c.555C>T synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641908 c.375delT frameshift_variant 0.11
fbiB 3642111 p.Ala193Pro missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244184 p.Ser318Arg missense_variant 0.2
embA 4244904 p.Val558Leu missense_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethR 4327084 c.-465G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0