TB-Profiler result

Run: SRR5818432
Summary

Run ID: SRR5818432

Sample name:

Date: 04-04-2023 11:27:23

Number of reads: 241560

Percentage reads mapped: 96.26

Strain: lineage4.9

Drug-resistance: MDR-TB

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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
lineage4.9 Euro-American (H37Rv-like) T1 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
rpoB 761155 p.Ser450Leu missense_variant 0.99 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.73 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
gid 4407605 c.597delC frameshift_variant 1.0 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 7585 p.Ser95Thr missense_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.25
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.5
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.4
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.4
rrs 1472119 n.274G>A non_coding_transcript_exon_variant 0.88
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.99
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.99
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.9
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.87
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.93
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.94
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.95
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.78
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.17
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.19
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.92
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.92
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.92
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.95
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.98
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.92
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.92
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.87
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.88
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.68
rrs 1472436 n.591G>T non_coding_transcript_exon_variant 0.42
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.44
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.68
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.32
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.33
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.8
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.68
rrs 1472450 n.605A>C non_coding_transcript_exon_variant 0.69
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.64
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.64
rrs 1472451 n.606C>T non_coding_transcript_exon_variant 0.69
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.32
rrs 1472462 n.617T>G non_coding_transcript_exon_variant 0.69
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.79
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.33
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.46
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.46
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.78
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.97
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.97
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.99
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.74
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.93
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.79
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.74
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.88
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.87
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.83
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.84
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.53
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.23
rrs 1472861 n.1016G>A non_coding_transcript_exon_variant 0.41
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.2
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.23
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.23
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.24
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.23
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.25
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.35
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.3
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.3
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.25
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.26
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.24
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.2
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.21
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.2
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.2
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.25
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.25
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.26
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.28
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.24
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.24
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.24
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.26
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.28
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.28
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.2
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.62
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.54
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.42
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.37
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.33
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.3
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.31
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.31
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.24
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.21
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.2
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.37
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.55
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.31
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.65
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.64
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.35
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.26
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.62
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.65
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.21
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.71
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.61
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.58
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.46
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.58
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.58
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.59
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.48
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.45
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.48
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.41
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.4
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.4
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.47
rrl 1476308 n.2651G>C non_coding_transcript_exon_variant 0.4
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.44
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.47
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.42
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.36
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.25
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.18
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.15
rrl 1476527 n.2870A>G non_coding_transcript_exon_variant 0.17
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.22
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.28
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.29
rrl 1476600 n.2943A>C non_coding_transcript_exon_variant 0.43
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.29
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.29
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918739 p.Gly267Asp missense_variant 1.0
pncA 2289022 p.Ser74Gly missense_variant 0.15
eis 2715204 c.129C>T synonymous_variant 0.25
ahpC 2726184 c.-9A>C upstream_gene_variant 0.67
ahpC 2726338 p.Val49Gly missense_variant 0.25
ahpC 2726341 p.Val50Gly missense_variant 0.29