TB-Profiler result

Run: SRR2101678

Summary

Run ID: SRR2101678

Sample name:

Date: 03-04-2023 23:51:22

Number of reads: 888353

Percentage reads mapped: 82.51

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
ccsA 619831 c.-60T>G upstream_gene_variant 0.39
ccsA 620748 c.858T>G synonymous_variant 0.21
rpoB 759620 c.-187A>C upstream_gene_variant 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461177 p.Ala45Ser missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 0.14
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.14
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.15
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.26
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.29
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.29
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.37
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.27
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.25
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.24
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.25
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.27
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.26
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.29
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.33
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.4
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.4
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.4
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.32
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.28
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.25
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.17
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.15
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.15
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.13
rrs 1472837 n.992_993insTCTG non_coding_transcript_exon_variant 0.13
rrs 1472873 n.1028C>A non_coding_transcript_exon_variant 0.14
rrs 1472875 n.1030T>A non_coding_transcript_exon_variant 0.15
rrs 1472877 n.1032T>A non_coding_transcript_exon_variant 0.13
rrs 1472880 n.1035_1036insA non_coding_transcript_exon_variant 0.14
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.29
rrs 1472973 n.1129_1130delAT non_coding_transcript_exon_variant 0.12
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.12
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.13
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.11
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.11
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.11
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.13
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.19
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.25
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.27
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.22
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.24
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.26
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.2
rrl 1474920 n.1263G>C non_coding_transcript_exon_variant 0.19
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.1
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.1
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.11
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.17
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.12
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.17
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.17
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.17
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.29
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.29
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.28
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 0.29
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.28
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.28
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.27
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.27
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.44
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.55
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.54
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.53
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 0.52
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.52
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.52
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.52
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 0.55
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.61
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.63
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.67
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.65
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.64
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.69
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.7
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.72
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.72
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.73
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.7
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.62
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.57
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.56
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 0.53
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.52
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.52
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.52
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.52
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.56
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.54
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.52
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.52
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.47
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.34
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.33
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.33
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.3
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.24
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.19
rrl 1476621 n.2964C>T non_coding_transcript_exon_variant 0.12
rrl 1476624 n.2967T>G non_coding_transcript_exon_variant 0.12
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.12
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.12
rrl 1476637 n.2980C>G non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167764 p.Ile950Lys missense_variant 0.12
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170267 p.Gly116Ser missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.27
thyX 3068155 c.-210G>T upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
Rv3236c 3612969 p.Gly50Trp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249330 p.Met939Ile missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0