TB-Profiler result

Run: ERR4820967
Summary

Run ID: ERR4820967

Sample name:

Date: 01-04-2023 16:59:12

Number of reads: 182132

Percentage reads mapped: 17.42

Strain:

Drug-resistance: HR-TB

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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
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 1472733 n.888G>A non_coding_transcript_exon_variant 0.93 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.27 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2153909 p.Asp735Asn missense_variant 0.29 isoniazid
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 7310 p.Asp3Glu missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762902 c.-468C>T upstream_gene_variant 0.33
rpoC 762911 c.-459C>T upstream_gene_variant 0.33
rpoC 762917 c.-453C>T upstream_gene_variant 0.29
rpoC 762920 c.-450C>T upstream_gene_variant 0.29
rpoC 762929 c.-441G>T upstream_gene_variant 0.29
rpoC 762944 c.-426C>T upstream_gene_variant 0.33
rpoC 762956 c.-414G>T upstream_gene_variant 0.33
rpoC 762962 c.-408C>T upstream_gene_variant 0.4
rpoB 763104 c.3299delT frameshift_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 1.0
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.9
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.94
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.94
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.94
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.98
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.98
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.15
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.84
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.15
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.98
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.97
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.95
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.62
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.98
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.99
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.19
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.99
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 1.0
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.89
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.75
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.5
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.67
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 1.0
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 1.0
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 1.0
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 1.0
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 1.0
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.92
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.93
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.93
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.94
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.13
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.92
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.93
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.95
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.92
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 1.0
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.82
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 1.0
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 1.0
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 1.0
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 1.0
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 1.0
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.89
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.91
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.9
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.86
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.83
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.8
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.8
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.71
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.79
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.73
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.73
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.71
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.72
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.76
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.8
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.33
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.53
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.53
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.53
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.83
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.83
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.43
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.4
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 1.0
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 1.0
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 1.0
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 1.0
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 1.0
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 1.0
rrl 1476286 n.2629G>A non_coding_transcript_exon_variant 0.17
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 1.0
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.5
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.46
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.57
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.38
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.36
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.68
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.32
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.32
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.19
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.23
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 1.0
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 1.0
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 1.0
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 1.0
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 1.0
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.8
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.67
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.67
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.67
rpsA 1834000 c.459G>C synonymous_variant 0.67
rpsA 1834015 c.474G>C synonymous_variant 1.0
rpsA 1834024 c.483G>A synonymous_variant 0.67
rpsA 1834030 c.489C>G synonymous_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918287 c.348C>T synonymous_variant 0.29
ndh 2102990 p.Val18Ala missense_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169631 p.Asn328Tyr missense_variant 0.5
Rv1979c 2222670 c.495G>A synonymous_variant 0.25
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726591 c.399C>T synonymous_variant 1.0
thyX 3067904 c.41delA frameshift_variant 0.29
ald 3086691 c.-129C>G upstream_gene_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087602 c.783T>C synonymous_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641641 p.Ala36Val missense_variant 0.29
alr 3841473 c.-53G>A upstream_gene_variant 1.0
ddn 3987033 p.Leu64Phe missense_variant 1.0
clpC1 4039147 p.Gly520Trp missense_variant 0.67
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242194 p.Gly778* stop_gained 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248083 p.Arg524Cys missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0