TB-Profiler result

Run: ERR171135
Summary

Run ID: ERR171135

Sample name:

Date: 31-03-2023 14:56:17

Number of reads: 7009030

Percentage reads mapped: 92.6

Strain: lineage2.2.1

Drug-resistance: Other

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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 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
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.16 kanamycin, capreomycin, aminoglycosides, amikacin
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 0.99
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 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.15
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.17
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.14
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.12
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.12
rrs 1472571 n.726G>A non_coding_transcript_exon_variant 0.12
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.13
rrs 1472606 n.761C>G non_coding_transcript_exon_variant 0.11
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.11
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.11
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.11
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.13
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.13
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.14
rrs 1472993 n.1148G>T non_coding_transcript_exon_variant 0.13
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.12
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.15
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.16
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.18
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.17
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.17
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.17
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.16
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.16
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.17
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.17
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.2
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.18
rrs 1473147 n.1302G>A non_coding_transcript_exon_variant 0.18
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.16
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.16
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.18
rrs 1473269 n.1424C>T non_coding_transcript_exon_variant 0.16
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.17
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.15
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.14
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.13
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.15
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.14
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.14
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.17
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.13
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.13
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.13
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.13
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.13
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.15
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.13
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.15
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.11
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.1
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.1
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.11
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.12
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.16
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.16
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.16
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.16
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.17
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.14
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.12
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.12
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.15
inhA 1674952 p.Pro251Ala missense_variant 0.18
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747167 p.Lys144Asn missense_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.18
ald 3086739 c.-81G>A upstream_gene_variant 0.99
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
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.99
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