TB-Profiler result

Run: ERR181905

Summary

Run ID: ERR181905

Sample name:

Date: 20-10-2023 22:36:59

Number of reads: 2243453

Percentage reads mapped: 90.22

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
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
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 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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
gyrB 5076 c.-164_-163insT upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9041 c.1740G>A synonymous_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
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
mmpL5 777745 p.Gly246Ser 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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.24
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.23
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.23
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.22
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.23
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.22
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.15
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.22
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.22
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.24
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.25
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.24
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.21
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.17
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.24
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.27
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.26
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.26
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.25
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.25
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.26
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.23
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.19
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.3
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.31
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.32
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.3
rrs 1473070 n.1225G>A non_coding_transcript_exon_variant 0.3
rrs 1473089 n.1244A>C non_coding_transcript_exon_variant 0.36
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.35
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.36
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.36
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.34
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.33
rrs 1473115 n.1270G>A non_coding_transcript_exon_variant 0.32
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.23
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.23
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.24
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.24
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.24
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.24
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.24
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.27
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.24
rrs 1473179 n.1334C>T non_coding_transcript_exon_variant 0.24
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.24
rrs 1473201 n.1356_1357delACinsT non_coding_transcript_exon_variant 0.18
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.17
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.19
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.18
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.18
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.19
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.22
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.18
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.17
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.17
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.16
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.14
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.14
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.13
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.12
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.12
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.12
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.12
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.16
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.24
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.27
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.38
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.36
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.41
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.42
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.41
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.52
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.49
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.51
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.38
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.31
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 2167926 p.Leu896Ser missense_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4039293 p.Gly471Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244263 p.Leu344Arg missense_variant 1.0
aftB 4267647 p.Asp397Gly missense_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