TB-Profiler result

Run: SRR14801688
Summary

Run ID: SRR14801688

Sample name:

Date: 03-04-2023 11:57:53

Number of reads: 1841676

Percentage reads mapped: 85.79

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.96
mshA 576085 c.738G>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.32
mshA 576482 p.Val379Leu missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 0.98
mmpL5 775639 p.Ile948Val 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 1472089 n.244C>T non_coding_transcript_exon_variant 0.11
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.13
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.23
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.25
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.25
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.25
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.24
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.24
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.24
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.26
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.26
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.3
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.31
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.29
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.3
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.22
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.2
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.18
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.11
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.12
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.13
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.12
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.13
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.13
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.18
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.18
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.18
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.18
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.16
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.16
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.22
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.27
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.34
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.29
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.26
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.27
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.28
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.26
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.26
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.24
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.26
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.27
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.26
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.26
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.15
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.16
rrs 1472953 n.1109dupT non_coding_transcript_exon_variant 0.17
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.18
rrs 1472958 n.1114delT non_coding_transcript_exon_variant 0.19
rrs 1472967 n.1122G>T non_coding_transcript_exon_variant 0.19
rrs 1472970 n.1125C>T non_coding_transcript_exon_variant 0.19
rrs 1472971 n.1126G>T non_coding_transcript_exon_variant 0.19
rrs 1472973 n.1129_1130delAT non_coding_transcript_exon_variant 0.2
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.19
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.2
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.2
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.2
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.2
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.2
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.2
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.2
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.2
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.2
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.24
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.25
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.2
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.13
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.2
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.21
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.18
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 0.14
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.14
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.14
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.14
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.16
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.34
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.41
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.41
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.4
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.4
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.38
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.34
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.34
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.34
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.34
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.33
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.31
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.32
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.33
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.34
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.37
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.46
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.58
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.61
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.58
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.59
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.57
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.6
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.59
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.6
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.62
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.64
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.55
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.33
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.14
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.12
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.12
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
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
fabG1 1673266 c.-174C>T upstream_gene_variant 1.0
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746340 p.Ala420Val missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.67
fbiD 3339744 c.627A>T synonymous_variant 0.4
fbiD 3339749 p.Val211Gly missense_variant 0.27
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.27
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 c.1737G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.5
embB 4247237 p.Leu242Val missense_variant 1.0
embB 4248324 p.Ala604Gly missense_variant 0.32
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408150 p.Leu18Pro missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0