TB-Profiler result

Run: SRR6982100
Summary

Run ID: SRR6982100

Sample name:

Date: 04-04-2023 18:27:16

Number of reads: 644812

Percentage reads mapped: 83.83

Strain: lineage4.4.1.1.1

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
lineage4.4 Euro-American S;T None 0.99
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 0.98
lineage4.4.1.1.1 Euro-American S;Orphans None 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
gyrA 9376 p.Pro692Gln missense_variant 0.11
ccsA 619831 c.-60T>G upstream_gene_variant 0.23
ccsA 620748 c.858T>G synonymous_variant 0.17
rpoB 759615 c.-192A>C upstream_gene_variant 0.17
rpoB 762370 p.Leu855Ser missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776820 p.Val554Asp missense_variant 0.12
mmpL5 778968 c.-489delA upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.12
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.12
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.15
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.11
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.11
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.11
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.11
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.11
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.19
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.22
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.22
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.25
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.25
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.21
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.16
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.15
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.16
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.18
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.17
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.17
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.21
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.23
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.31
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.32
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.32
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.34
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.29
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.26
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 0.11
rrs 1472837 n.992_993insTCTG non_coding_transcript_exon_variant 0.11
rrs 1472873 n.1028C>A non_coding_transcript_exon_variant 0.12
rrs 1472875 n.1030T>A non_coding_transcript_exon_variant 0.12
rrs 1472877 n.1032T>A non_coding_transcript_exon_variant 0.11
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.27
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.12
rrs 1472958 n.1114delT non_coding_transcript_exon_variant 0.12
rrs 1472971 n.1126G>T non_coding_transcript_exon_variant 0.11
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.11
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.12
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.23
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.11
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.13
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.13
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.14
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.14
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.14
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.17
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.16
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.21
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.2
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.2
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.26
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.33
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.36
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.25
rrl 1474920 n.1263G>C non_coding_transcript_exon_variant 0.2
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.15
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.15
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.14
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.14
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.17
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.1
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.28
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.28
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.27
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.28
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.28
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.28
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.28
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.27
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.27
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.26
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.25
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.47
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.59
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.57
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.57
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.53
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.53
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.52
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.53
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.53
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.53
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.53
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.53
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.53
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.52
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.56
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.62
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.63
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.68
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.66
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.66
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.73
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.74
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.73
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.73
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.74
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.72
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.6
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.55
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.55
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.53
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.53
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.53
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.55
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.51
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.5
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.5
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.5
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.53
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.5
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.49
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.48
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.42
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.2
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.2
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.21
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.21
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.14
rrl 1476685 n.3031delC non_coding_transcript_exon_variant 0.12
rpsA 1834623 p.Ser361* stop_gained 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918061 p.Lys41Arg missense_variant 0.22
ndh 2102990 p.Val18Ala missense_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.25
katG 2154041 p.Gly691Ser missense_variant 0.14
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170267 p.Gly116Ser missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518147 c.33C>T synonymous_variant 0.21
eis 2714781 p.Gln184His missense_variant 0.12
ahpC 2726338 p.Val49Gly missense_variant 0.3
folC 2746873 p.Met242Ile missense_variant 0.13
thyX 3068155 c.-210G>T upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087632 p.Gln271His missense_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 0.96
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612516 p.Arg201Ser missense_variant 0.11
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3641539 p.Thr2Ile missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244519 c.1287G>T synonymous_variant 0.2
embB 4245689 c.-825C>A upstream_gene_variant 0.12
embA 4246033 p.Pro934Gln missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0