TB-Profiler result

Run: SRR6045618
Summary

Run ID: SRR6045618

Sample name:

Date: 04-04-2023 12:02:30

Number of reads: 1913099

Percentage reads mapped: 70.13

Strain: lineage3.1.2

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
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.2 East-African-Indian CAS;CAS2 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 0.86 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
ccsA 620748 c.858T>G synonymous_variant 0.23
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 0.98
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 1472137 n.292G>A non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.4
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.4
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.22
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.33
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.25
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.4
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.4
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.62
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.15
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.68
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.7
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.77
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.77
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.77
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.77
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.21
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.72
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.77
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.69
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.52
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.88
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.12
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.78
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.78
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.83
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.95
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.86
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.12
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.9
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.94
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.84
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.47
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.83
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.83
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.91
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.38
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.88
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.88
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.83
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.83
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.7
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.63
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.56
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.58
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.58
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.58
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.24
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.2
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.14
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.23
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.15
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.16
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.16
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.13
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.11
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.67
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.67
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.5
rrl 1474674 n.1018delC non_coding_transcript_exon_variant 0.33
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.43
rrl 1474709 n.1052G>A non_coding_transcript_exon_variant 0.4
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.4
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.4
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.33
rrl 1475704 n.2047C>T non_coding_transcript_exon_variant 0.22
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.17
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.17
rrl 1475717 n.2060C>G non_coding_transcript_exon_variant 0.17
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.23
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.27
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.15
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.23
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.18
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.2
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.19
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.17
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.13
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.13
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.13
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.14
rrl 1475995 n.2338G>C non_coding_transcript_exon_variant 0.14
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.14
rrl 1475998 n.2341C>G non_coding_transcript_exon_variant 0.14
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.15
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.18
rrl 1476126 n.2469C>T non_coding_transcript_exon_variant 0.38
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.38
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 0.38
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.67
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.75
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.77
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.75
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.75
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.75
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.75
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.75
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.75
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.86
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.86
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.86
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.86
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.86
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.94
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.93
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.94
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.97
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 1.0
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 1.0
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 1.0
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 1.0
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 1.0
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 1.0
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 1.0
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 1.0
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 1.0
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 1.0
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 1.0
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 1.0
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 1.0
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.88
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.9
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.9
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.9
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.87
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.86
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.93
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.89
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.92
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.89
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.85
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.83
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.5
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.42
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.4
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.4
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.3
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918696 p.Ala253Pro missense_variant 0.96
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168604 p.Pro670Leu missense_variant 0.97
Rv1979c 2223257 c.-93G>C upstream_gene_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 0.98
eis 2715432 c.-100C>T 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
fprA 3475052 p.Asn349Thr missense_variant 1.0
rpoA 3878552 c.-45C>A upstream_gene_variant 0.22
rpoA 3878567 c.-60C>G upstream_gene_variant 0.5
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248241 c.1728C>G synonymous_variant 0.99
ethR 4327693 p.Asp49Asn missense_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408147 p.Ala19Val missense_variant 1.0