TB-Profiler result

Run: ERR2514315
Summary

Run ID: ERR2514315

Sample name:

Date: 31-03-2023 20:15:48

Number of reads: 1997616

Percentage reads mapped: 98.66

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 1472733 n.888G>A non_coding_transcript_exon_variant 0.26 streptomycin
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 8337 p.Leu346Val missense_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.99
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.97
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 1472507 n.662C>G non_coding_transcript_exon_variant 0.35
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.38
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.38
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.41
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.41
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.44
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.44
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.44
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.44
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.43
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.53
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.47
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.47
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.29
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.4
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.36
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.33
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.21
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.27
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.21
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.2
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.2
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.14
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.19
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.19
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.26
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.28
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.26
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.26
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.19
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.17
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.18
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.1
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.1
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.1
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.19
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.19
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.2
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.26
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.23
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.22
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.22
rrs 1473102 n.1257C>T 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 1473115 n.1270G>T non_coding_transcript_exon_variant 0.18
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.16
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.19
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.12
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.1
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.1
rrl 1475892 n.2235A>G non_coding_transcript_exon_variant 0.11
rrl 1475897 n.2240T>G 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 0.1
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.1
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.17
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.26
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.23
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.15
rrl 1476466 n.2809C>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 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0