TB-Profiler result

Run: SRR1735585
Summary

Run ID: SRR1735585

Sample name:

Date: 03-04-2023 17:58:04

Number of reads: 2527849

Percentage reads mapped: 95.55

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 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
rpoB 760313 c.507G>C synonymous_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 0.99
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.26
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.38
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.38
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.38
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.38
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.38
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.38
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.38
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.38
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.38
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.33
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.29
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.25
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.29
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.29
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.29
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.25
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.25
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.25
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.25
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.12
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.12
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.12
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.14
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.14
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.14
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.14
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.14
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.14
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.15
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.15
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.15
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.15
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.15
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.19
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.19
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.19
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.25
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.25
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.25
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.21
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.21
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.21
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.21
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.21
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.2
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.17
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.21
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.26
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.28
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.26
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.28
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.32
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.3
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.26
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.19
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.2
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.19
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.14
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
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
embA 4243876 p.Leu215Pro missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0