TB-Profiler result

Run: SRR6982180
Summary

Run ID: SRR6982180

Sample name:

Date: 04-04-2023 18:29:44

Number of reads: 723362

Percentage reads mapped: 95.06

Strain: lineage4.1.1.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.2 Euro-American (X-type) X1 None 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
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 490751 c.-32T>G upstream_gene_variant 0.21
fgd1 490871 c.90delC frameshift_variant 0.11
fgd1 491697 c.915G>T synonymous_variant 0.11
ccsA 619831 c.-60T>G upstream_gene_variant 0.17
rpoB 759620 c.-187A>C upstream_gene_variant 0.35
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.14
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.15
rrs 1472518 n.673G>C non_coding_transcript_exon_variant 0.15
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.15
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.15
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.15
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.17
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.17
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.21
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.27
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.38
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.47
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.47
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.39
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.39
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.38
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.32
rrs 1472669 n.824_825insTAGA non_coding_transcript_exon_variant 0.28
rrs 1472678 n.833T>G non_coding_transcript_exon_variant 0.27
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.3
rrs 1472682 n.839_843delGGGAT non_coding_transcript_exon_variant 0.27
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.25
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.31
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.26
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.31
rrs 1472701 n.856T>A non_coding_transcript_exon_variant 0.24
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.39
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.41
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.44
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.42
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.44
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.32
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.27
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.21
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.14
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.11
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.11
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.1
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.12
rrs 1472861 n.1016G>C non_coding_transcript_exon_variant 0.12
rrs 1472873 n.1028C>G non_coding_transcript_exon_variant 0.11
rrs 1472875 n.1030T>A non_coding_transcript_exon_variant 0.11
rrs 1472880 n.1035_1036insA non_coding_transcript_exon_variant 0.11
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.15
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.11
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.11
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.13
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.14
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.15
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.14
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.11
rrl 1474920 n.1263G>C non_coding_transcript_exon_variant 0.11
rrl 1475672 n.2015C>G non_coding_transcript_exon_variant 0.15
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.15
rrl 1475687 n.2030C>T non_coding_transcript_exon_variant 0.17
rrl 1475688 n.2031G>C non_coding_transcript_exon_variant 0.17
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.17
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.2
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.2
rrl 1475707 n.2050T>A non_coding_transcript_exon_variant 0.2
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.2
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.21
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.15
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.19
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.23
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.23
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.23
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.23
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.23
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.23
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.23
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.23
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.23
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.24
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.24
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.24
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.28
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.32
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.34
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.36
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.36
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.36
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.41
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.42
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.48
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.5
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.33
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.2
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.14
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.1
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.1
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.1
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.11
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.11
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.11
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.11
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.11
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.11
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.1
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155296 c.816C>T synonymous_variant 1.0
PPE35 2168854 p.Pro587Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518889 p.Ala259Ser missense_variant 0.11
ahpC 2726338 p.Val49Gly missense_variant 0.18
Rv2752c 3065052 p.Glu380Asp missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449052 c.549C>T synonymous_variant 0.12
Rv3083 3449787 c.1284C>T synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612532 c.585G>A synonymous_variant 0.15
Rv3236c 3613043 c.73dupG frameshift_variant 0.12
clpC1 4039676 c.1029G>A synonymous_variant 1.0
embC 4240648 c.786C>T synonymous_variant 0.18
embC 4241535 p.Pro558Gln missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243329 p.Leu33Met missense_variant 0.11
embA 4243332 p.Leu34Ile missense_variant 0.11
embA 4243833 p.Ala201Thr missense_variant 1.0
embA 4245331 p.Gly700Val missense_variant 0.11
embB 4246930 p.Gln139His missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0