TB-Profiler result

Run: SRR5818430
Summary

Run ID: SRR5818430

Sample name:

Date: 04-04-2023 11:27:10

Number of reads: 203047

Percentage reads mapped: 98.6

Strain: lineage4.9

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
lineage4.9 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
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 6454 c.-848C>T upstream_gene_variant 0.99
gyrA 6721 c.-581C>T upstream_gene_variant 0.98
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7665 p.Asp122Asn missense_variant 0.2
mmpL5 779283 c.-803G>A upstream_gene_variant 0.85
mmpL5 779295 c.-815A>G upstream_gene_variant 0.83
mmpR5 779431 p.Asn148Gln missense_variant 0.88
mmpL5 779472 c.-992G>A upstream_gene_variant 0.85
mmpS5 779523 c.-618T>A upstream_gene_variant 0.8
mmpS5 779538 c.-633A>C upstream_gene_variant 1.0
mmpS5 779539 c.-634C>A upstream_gene_variant 1.0
rplC 801267 c.459A>G synonymous_variant 0.99
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.52
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.31
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.22
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.16
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.39
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.21
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.21
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.33
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.29
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.28
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.24
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.28
rrs 1472427 n.582T>G non_coding_transcript_exon_variant 0.29
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.32
rrs 1472436 n.591G>T non_coding_transcript_exon_variant 0.29
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.29
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.29
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.32
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.25
rrs 1472450 n.605A>C non_coding_transcript_exon_variant 0.26
rrs 1472451 n.606C>T non_coding_transcript_exon_variant 0.25
rrs 1472462 n.617T>G non_coding_transcript_exon_variant 0.3
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.33
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.3
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.3
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.3
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.33
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.36
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.33
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.33
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.33
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.95
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.96
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.78
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.8
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.81
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.65
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.69
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.63
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.68
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.61
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.77
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.18
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.18
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.18
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.16
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.17
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.19
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.22
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.23
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.18
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.18
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.21
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.21
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.21
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.19
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.16
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.15
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.17
rrl 1476164 n.2507A>T non_coding_transcript_exon_variant 0.23
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.39
rrl 1476194 n.2537A>T non_coding_transcript_exon_variant 0.29
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.41
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.26
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.44
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.42
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.38
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.44
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.32
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.31
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.29
rrl 1476267 n.2610G>T non_coding_transcript_exon_variant 0.23
inhA 1674816 c.615T>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155345 p.Ala256Val missense_variant 0.15
pncA 2289104 c.138A>G synonymous_variant 0.95
ahpC 2726338 p.Val49Gly missense_variant 0.29
ahpC 2726341 p.Val50Gly missense_variant 0.5
ahpC 2726350 p.Trp53Leu missense_variant 0.22
embB 4247590 c.1077A>G synonymous_variant 0.92
embB 4247646 p.Glu378Ala missense_variant 0.93
embB 4247815 c.1302C>T synonymous_variant 0.95
ethA 4326463 c.1011C>T synonymous_variant 1.0
ethA 4326740 p.Arg245His missense_variant 1.0
ethA 4326764 p.Ala237Val missense_variant 0.5
gid 4407588 c.615A>G synonymous_variant 1.0