TB-Profiler result

Run: SRR13180205
Summary

Run ID: SRR13180205

Sample name:

Date: 03-04-2023 08:13:41

Number of reads: 991947

Percentage reads mapped: 96.38

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 7547 c.246C>A synonymous_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
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 1472951 n.1106T>C non_coding_transcript_exon_variant 0.14
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.14
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.14
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.13
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.18
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.18
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.24
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.27
rrs 1473099 n.1254T>G non_coding_transcript_exon_variant 0.27
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.27
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.29
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.25
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.25
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.18
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.17
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 0.19
rrs 1473156 n.1311A>T non_coding_transcript_exon_variant 0.14
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.12
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.11
rrl 1474266 n.609T>C non_coding_transcript_exon_variant 0.1
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.1
rrl 1474288 n.631C>T non_coding_transcript_exon_variant 0.11
rrl 1474289 n.633_644delTTTTCCTCTCCG non_coding_transcript_exon_variant 0.11
rrl 1474305 n.648G>C non_coding_transcript_exon_variant 0.11
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.12
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.12
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.12
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.18
rrl 1475489 n.1832G>A non_coding_transcript_exon_variant 0.2
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.18
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.27
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.25
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.18
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.12
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.19
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.19
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.2
rrl 1476080 n.2423T>A non_coding_transcript_exon_variant 0.12
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.12
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.12
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.12
rrl 1476103 n.2446C>A non_coding_transcript_exon_variant 0.12
rrl 1476105 n.2450delA non_coding_transcript_exon_variant 0.12
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.12
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.12
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.22
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.21
rrl 1476189 n.2532C>A non_coding_transcript_exon_variant 0.11
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.26
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.26
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.26
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.28
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.24
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.29
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.29
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.21
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.24
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.33
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.33
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.15
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.15
rrl 1476300 n.2643G>A non_coding_transcript_exon_variant 0.14
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.17
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.24
rpsA 1833348 c.-194A>G upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T 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
embA 4242643 c.-590C>T upstream_gene_variant 0.98
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243284 p.Val18Ile missense_variant 1.0
whiB6 4338593 c.-72C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0