TB-Profiler result

Run: ERR2510807
Summary

Run ID: ERR2510807

Sample name:

Date: 31-03-2023 18:57:00

Number of reads: 1554438

Percentage reads mapped: 74.18

Strain: lineage4.6

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.6 Euro-American T;LAM 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
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.2 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
gyrB 5485 c.246C>T synonymous_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 766584 p.Gly1072Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781668 p.Val37Met missense_variant 0.11
fbiC 1304790 c.1860C>T synonymous_variant 0.1
fbiC 1305476 p.Thr849Ser missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.3
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.22
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.42
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.67
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.5
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.39
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.56
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.18
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.38
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.33
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.4
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.44
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.38
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.43
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.6
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.33
rrs 1472333 n.488G>T non_coding_transcript_exon_variant 0.22
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.38
rrs 1472349 n.504A>T non_coding_transcript_exon_variant 0.14
rrs 1472374 n.529T>A non_coding_transcript_exon_variant 0.25
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.64
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.53
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.53
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.53
rrs 1472412 n.567A>C non_coding_transcript_exon_variant 0.2
rrs 1472415 n.570T>G non_coding_transcript_exon_variant 0.2
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.29
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.25
rrs 1472723 n.878G>T non_coding_transcript_exon_variant 0.17
rrs 1472726 n.881G>A non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.57
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.7
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.79
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.77
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.76
rrs 1472827 n.982G>C non_coding_transcript_exon_variant 0.53
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.58
rrs 1472853 n.1008A>C non_coding_transcript_exon_variant 1.0
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.2
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.14
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.2
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.2
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.2
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.2
rrs 1473043 n.1198G>T non_coding_transcript_exon_variant 0.12
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.53
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.45
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.45
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.47
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.38
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.36
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.15
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.13
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.14
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.14
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.14
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.12
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.13
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.15
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.15
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.75
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.75
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.75
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.75
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.75
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.75
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.75
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.75
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.6
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.16
Rv1979c 2223072 c.93T>C synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714264 p.Gly357Cys missense_variant 0.11
folC 2746910 p.Thr230Ser missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878465 p.Thr15Ala missense_variant 0.11
clpC1 4039353 p.Arg451Leu missense_variant 0.12
clpC1 4039721 c.984C>T synonymous_variant 0.11
clpC1 4039724 c.981A>G synonymous_variant 0.11
clpC1 4039729 p.Asp326Asn missense_variant 0.11
clpC1 4040021 c.684A>G synonymous_variant 0.11
clpC1 4040033 c.672G>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0