TB-Profiler result

Run: ERR1023494
Summary

Run ID: ERR1023494

Sample name:

Date: 31-03-2023 09:24:15

Number of reads: 2489172

Percentage reads mapped: 50.07

Strain: lineage3

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
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage3 East-African-Indian CAS RD750 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8056 p.Arg252Leu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762863 c.-507T>C upstream_gene_variant 0.22
rpoB 762872 p.Met1022Ile missense_variant 0.23
rpoB 762878 p.Ile1024Met missense_variant 0.22
rpoB 762879 p.Met1025Leu missense_variant 0.21
rpoC 762899 c.-471G>C upstream_gene_variant 0.24
rpoC 762920 c.-450C>T upstream_gene_variant 0.24
rpoC 762923 c.-447C>G upstream_gene_variant 0.24
rpoB 762925 p.Thr1040Ile missense_variant 0.24
rpoC 762929 c.-441G>C upstream_gene_variant 0.23
rpoB 762939 p.Met1045Leu missense_variant 0.23
rpoB 762942 p.Ile1046Val missense_variant 0.23
rpoC 762980 c.-390T>C upstream_gene_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764401 c.1032C>T synonymous_variant 0.14
rpoC 764405 c.1036A>C synonymous_variant 0.16
rpoC 764410 c.1041G>C synonymous_variant 0.2
rpoC 764419 c.1050C>G synonymous_variant 0.21
rpoC 764428 c.1059G>C synonymous_variant 0.21
rpoC 764434 c.1065A>G synonymous_variant 0.19
rpoC 764435 c.1066_1068delAGGinsCGC synonymous_variant 0.19
rpoC 764446 p.Asp359Glu missense_variant 0.2
rpoC 764450 p.Gly361Arg missense_variant 0.19
rpoC 764461 p.Glu364Asp missense_variant 0.19
rpoC 764468 p.Val367Ile missense_variant 0.19
rpoC 764471 p.Asn368Arg missense_variant 0.19
rpoC 764479 c.1110G>A synonymous_variant 0.19
rpoC 764503 c.1134G>C synonymous_variant 0.18
rpoC 764509 c.1140G>C synonymous_variant 0.15
rpoC 764521 c.1152T>C synonymous_variant 0.13
rpoC 764623 c.1254C>G synonymous_variant 0.15
rpoC 764632 c.1263T>C synonymous_variant 0.16
rpoC 764650 c.1281G>T synonymous_variant 0.15
rpoC 764658 c.1290_1291insACC conservative_inframe_insertion 0.15
rpoC 764663 c.1295_1296delTC frameshift_variant 0.15
rpoC 764667 p.Gly433Asp missense_variant 0.15
rpoC 764671 c.1303delC frameshift_variant 0.15
rpoC 764677 c.1308C>G synonymous_variant 0.15
rpoC 764687 p.Gln440Glu missense_variant 0.14
rpoC 764695 c.1326T>C synonymous_variant 0.15
rpoC 764705 p.Leu446Lys missense_variant 0.15
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 1472112 n.267C>T non_coding_transcript_exon_variant 0.12
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.14
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.19
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.19
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.19
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.21
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.21
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.19
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.19
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.2
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.2
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.19
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.13
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.2
rrs 1472715 n.870C>A non_coding_transcript_exon_variant 0.2
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.21
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.22
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.23
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.23
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.21
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.2
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.2
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.19
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.19
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.22
rrl 1476266 n.2609G>A non_coding_transcript_exon_variant 0.22
rrl 1476279 n.2622G>C non_coding_transcript_exon_variant 0.23
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.24
rrl 1476281 n.2624T>A non_coding_transcript_exon_variant 0.24
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.25
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.25
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.25
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.25
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.27
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.25
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.25
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.27
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.41
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.41
rrl 1476339 n.2682G>A non_coding_transcript_exon_variant 0.41
rrl 1476356 n.2699C>T non_coding_transcript_exon_variant 0.45
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.46
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.47
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.47
rrl 1476384 n.2727G>A non_coding_transcript_exon_variant 0.48
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.52
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.53
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.5
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.5
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.48
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.48
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.45
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.45
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.44
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.39
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.32
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
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
thyA 3074424 c.48G>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328212 c.-740delC upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0