TB-Profiler result

Run: ERR2228813
Summary

Run ID: ERR2228813

Sample name:

Date: 31-03-2023 16:21:44

Number of reads: 1355835

Percentage reads mapped: 81.1

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.19 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
fgd1 491315 p.Gly178Ala missense_variant 0.45
rpoC 762920 c.-450C>T upstream_gene_variant 0.16
rpoC 763534 c.165T>C synonymous_variant 0.13
rpoC 763570 c.201G>C synonymous_variant 0.15
rpoC 763573 c.204G>C synonymous_variant 0.15
rpoC 763594 c.225C>T synonymous_variant 0.18
rpoC 763627 p.Lys86Asn missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778078 p.Thr135Pro missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.96
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.2
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.25
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.22
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.14
rrs 1472522 n.677T>G non_coding_transcript_exon_variant 0.15
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.29
rrs 1472571 n.726G>T non_coding_transcript_exon_variant 0.35
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.33
rrs 1472582 n.737G>T non_coding_transcript_exon_variant 0.29
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.3
rrs 1472585 n.740A>C non_coding_transcript_exon_variant 0.28
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.3
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.3
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.28
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.29
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.25
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.28
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.26
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.29
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.38
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.36
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.36
rrs 1472812 n.967A>T non_coding_transcript_exon_variant 0.31
rrs 1472954 n.1110delC non_coding_transcript_exon_variant 0.31
rrs 1472958 n.1113_1114insC non_coding_transcript_exon_variant 0.29
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.36
rrs 1472986 n.1141_1142insA non_coding_transcript_exon_variant 0.25
rrs 1472989 n.1145delA non_coding_transcript_exon_variant 0.23
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.31
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.15
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.24
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.24
rrs 1473226 n.1381C>G non_coding_transcript_exon_variant 0.21
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.18
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.15
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.12
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.11
rrl 1473887 n.230T>G non_coding_transcript_exon_variant 0.2
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.15
rrl 1474218 n.561T>G non_coding_transcript_exon_variant 0.11
rrl 1474611 n.954A>T non_coding_transcript_exon_variant 0.32
rrl 1474752 n.1096delA non_coding_transcript_exon_variant 0.19
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.19
rrl 1474853 n.1196A>G non_coding_transcript_exon_variant 0.16
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.12
rrl 1474927 n.1270T>G non_coding_transcript_exon_variant 0.24
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.43
rrl 1475877 n.2220C>T non_coding_transcript_exon_variant 0.29
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.32
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.35
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.36
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.39
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.37
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.38
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.47
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.5
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.5
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.6
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 1475978 n.2321C>T non_coding_transcript_exon_variant 0.4
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.4
rrl 1475991 n.2334T>A non_coding_transcript_exon_variant 0.67
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.67
rrl 1475996 n.2339T>G non_coding_transcript_exon_variant 0.67
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.25
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.19
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.35
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.37
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.44
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.47
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.46
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.38
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.38
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.4
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.36
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.45
rrl 1476235 n.2578A>G non_coding_transcript_exon_variant 0.44
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.37
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.33
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.32
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.32
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.56
rrl 1476363 n.2706A>G non_coding_transcript_exon_variant 0.56
rrl 1476366 n.2709A>C non_coding_transcript_exon_variant 0.56
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.53
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.53
rrl 1476374 n.2717T>G non_coding_transcript_exon_variant 0.52
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.57
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.54
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.62
rrl 1476493 n.2836A>T non_coding_transcript_exon_variant 0.17
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519346 p.Leu411Arg missense_variant 0.22
ahpC 2726428 p.Asp79Ala missense_variant 0.36
thyA 3074061 p.Glu137Asp missense_variant 0.25
ald 3087320 c.501A>G synonymous_variant 0.12
Rv3236c 3613094 p.Leu8Ser missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267945 p.Tyr298Asn missense_variant 0.22
aftB 4268619 p.Val73Gly missense_variant 0.33
ethR 4327336 c.-213A>G upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0