TB-Profiler result

Run: SRR18911138
Summary

Run ID: SRR18911138

Sample name:

Date: 03-04-2023 20:42:10

Number of reads: 2070013

Percentage reads mapped: 79.77

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 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 0.48 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
rpoB 760879 p.Pro358Leu missense_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
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.36
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.11
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.21
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.23
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.4
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.4
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.4
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.4
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.41
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.41
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.43
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.43
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.44
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.44
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.42
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.41
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.4
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.4
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.44
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.43
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.43
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.46
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.47
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.48
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.48
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.43
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.39
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.33
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.25
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.13
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.13
rrs 1472826 n.981G>A non_coding_transcript_exon_variant 0.14
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.13
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.13
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.14
rrs 1472838 n.993A>T non_coding_transcript_exon_variant 0.13
rrs 1472845 n.1000G>C non_coding_transcript_exon_variant 0.13
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.13
rrs 1472873 n.1028C>A non_coding_transcript_exon_variant 0.13
rrs 1472875 n.1030T>A non_coding_transcript_exon_variant 0.14
rrs 1472877 n.1032T>A non_coding_transcript_exon_variant 0.14
rrs 1472880 n.1035_1036insA non_coding_transcript_exon_variant 0.11
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 0.16
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.18
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.21
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.2
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.19
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.18
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.18
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.18
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.18
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.18
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.18
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.18
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.18
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.18
rrl 1476213 n.2556G>A non_coding_transcript_exon_variant 0.17
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.17
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.18
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.27
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.29
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.36
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.37
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.37
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.38
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.37
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.37
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.37
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.37
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.37
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.37
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.37
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.37
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.37
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.37
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.38
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.38
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.4
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.43
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.43
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.41
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.41
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.4
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.39
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.39
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.39
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.4
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.36
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.29
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.21
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.19
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.18
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.18
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.17
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.17
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.17
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.18
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.18
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.18
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.18
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.18
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.17
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.14
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.15
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
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
embB 4249525 c.3012T>C synonymous_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