TB-Profiler result

Run: SRR6045925
Summary

Run ID: SRR6045925

Sample name:

Date: 04-04-2023 12:07:45

Number of reads: 910570

Percentage reads mapped: 55.42

Strain: lineage4.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.2 Euro-American H;T;LAM 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.92 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 490751 c.-32T>G upstream_gene_variant 0.23
fgd1 491027 p.Asn82Thr missense_variant 0.26
mshA 576077 c.730C>T synonymous_variant 1.0
rpoC 764541 p.Val391Gly missense_variant 0.11
rpoC 764543 p.Thr392Asp missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801148 p.Val114Met missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.17
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.17
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.22
rrs 1472498 n.653C>A non_coding_transcript_exon_variant 0.56
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.78
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.81
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.83
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.89
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.9
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.91
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.92
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.94
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.94
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.94
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.12
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.97
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.99
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.99
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.12
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.97
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.95
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.94
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.92
rrs 1472673 n.828T>A non_coding_transcript_exon_variant 0.91
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.92
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.9
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.96
rrs 1472687 n.843dupT non_coding_transcript_exon_variant 0.91
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.94
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.94
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.95
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.94
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.93
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.93
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.89
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.92
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.9
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.88
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.6
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.8
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.4
rrs 1473002 n.1157G>C non_coding_transcript_exon_variant 0.22
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.2
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.18
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.29
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.42
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.45
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.56
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.43
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.17
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.2
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.2
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.22
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.29
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.29
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.33
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.29
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.38
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.56
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.71
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.86
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.15
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.5
rrl 1474709 n.1052G>A non_coding_transcript_exon_variant 0.5
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.67
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 1.0
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.5
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.73
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.73
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.6
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.62
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.5
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.3
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.29
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.18
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.33
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.45
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.5
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.86
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.86
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.71
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.86
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 0.62
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.75
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.75
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.75
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.75
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.88
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.82
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.83
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.86
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.79
rrl 1476252 n.2595T>A non_coding_transcript_exon_variant 0.11
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.86
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.9
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.9
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.87
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.87
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.87
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.87
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.86
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.7
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.81
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.87
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.88
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.88
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.79
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.9
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.89
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.91
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.92
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.87
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.9
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.91
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.91
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.92
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.93
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.95
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.91
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.91
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.91
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.83
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.67
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167859 c.2754T>G synonymous_variant 0.24
PPE35 2169902 p.Leu237Phe missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519197 c.1083G>C synonymous_variant 0.2
folC 2746745 p.Val285Gly missense_variant 0.22
Rv2752c 3065721 c.471G>A synonymous_variant 0.11
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
ald 3086742 c.-78A>C 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
Rv3236c 3612012 p.Leu369Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246555 c.42G>C synonymous_variant 0.12
embB 4246556 p.Ala15Pro missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0