TB-Profiler result

Run: SRR6045910
Summary

Run ID: SRR6045910

Sample name:

Date: 04-04-2023 12:07:40

Number of reads: 2035228

Percentage reads mapped: 93.09

Strain: lineage3.1

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 1.0
lineage3.1 East-African-Indian Non-CAS1-Delhi 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.5 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 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 763031 c.-339T>C upstream_gene_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 1471935 n.90T>A non_coding_transcript_exon_variant 0.11
rrs 1472108 n.263C>A non_coding_transcript_exon_variant 0.18
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.18
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.22
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.22
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.25
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.25
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.22
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.3
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.2
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.2
rrs 1472498 n.653C>A non_coding_transcript_exon_variant 0.67
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.67
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.5
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.5
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.6
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.5
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.43
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.43
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.55
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.5
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.55
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.33
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.33
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.23
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.25
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.25
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.3
rrs 1472673 n.828T>A non_coding_transcript_exon_variant 0.3
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.3
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.3
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.3
rrs 1472687 n.843dupT non_coding_transcript_exon_variant 0.33
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.33
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.38
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.33
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.33
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.5
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.5
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.6
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.4
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.5
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.5
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.5
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.67
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.22
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.2
rrl 1474673 n.1016T>G non_coding_transcript_exon_variant 0.67
rrl 1474674 n.1018delC non_coding_transcript_exon_variant 0.67
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.67
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.6
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.4
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.22
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.57
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.71
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.22
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.8
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.4
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.5
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.25
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.62
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.29
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.29
rrl 1475751 n.2094C>G non_coding_transcript_exon_variant 0.33
rrl 1475752 n.2095C>A non_coding_transcript_exon_variant 0.29
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.33
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.29
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.29
rrl 1475776 n.2119G>T non_coding_transcript_exon_variant 0.29
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.43
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.25
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.25
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.25
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.22
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.25
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.29
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.29
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.33
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.33
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.33
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.33
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.75
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.5
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.67
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.67
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.67
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 1.0
rrl 1475995 n.2338G>C non_coding_transcript_exon_variant 1.0
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 1.0
rrl 1475998 n.2341C>G non_coding_transcript_exon_variant 1.0
rrl 1476000 n.2343G>A non_coding_transcript_exon_variant 1.0
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 1.0
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.33
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.33
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.22
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.44
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.22
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.44
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.3
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.22
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.25
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.22
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.25
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.22
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.22
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.56
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.5
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.5
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.5
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.38
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.38
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.47
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.5
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.11
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.17
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.24
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.14
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.14
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155334 p.Val260Ile 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
ahpC 2726338 p.Val49Gly missense_variant 0.21
ahpC 2726341 p.Val50Gly missense_variant 0.24
thyA 3074648 c.-177T>G upstream_gene_variant 0.24
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4241562 p.Arg567His missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247470 c.957T>C synonymous_variant 0.11
whiB6 4338592 c.-71G>C upstream_gene_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338706 c.-185C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0