TB-Profiler result

Run: SRR12006547
Summary

Run ID: SRR12006547

Sample name:

Date: 03-04-2023 05:53:15

Number of reads: 2005007

Percentage reads mapped: 98.51

Strain: lineage1.2.1.2.1

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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.2.1 Indo-Oceanic EAI2 RD239 1.0
lineage1.2.1.2 Indo-Oceanic NA RD239 1.0
lineage1.2.1.2.1 Indo-Oceanic NA RD239 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
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9260 c.1959G>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575368 c.21T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.22
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763531 c.162G>C synonymous_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406312 c.1029T>C synonymous_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.15
rrs 1472287 n.442C>T non_coding_transcript_exon_variant 0.15
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.15
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.14
rrs 1472297 n.453_461delGTCCGGGTT non_coding_transcript_exon_variant 0.14
rrs 1472309 n.464C>T non_coding_transcript_exon_variant 0.14
rrs 1472311 n.466C>T non_coding_transcript_exon_variant 0.14
rrs 1472312 n.468_470delGAT non_coding_transcript_exon_variant 0.14
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.12
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.12
rrs 1472330 n.485G>T non_coding_transcript_exon_variant 0.13
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.15
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.15
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.15
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.15
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.16
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.15
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.15
rrs 1472461 n.616G>T non_coding_transcript_exon_variant 0.14
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.14
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.14
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.14
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.15
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.12
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.17
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.12
rrl 1473777 n.124delG non_coding_transcript_exon_variant 0.14
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.12
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 1.0
rrl 1474753 n.1096A>T non_coding_transcript_exon_variant 0.12
rrl 1474754 n.1097C>G non_coding_transcript_exon_variant 0.12
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.19
rrl 1474784 n.1127C>T non_coding_transcript_exon_variant 0.18
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.24
rrl 1474798 n.1141C>G non_coding_transcript_exon_variant 0.18
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.22
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.21
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.26
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.21
rrl 1474825 n.1168G>A non_coding_transcript_exon_variant 0.21
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.21
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.19
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.27
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.18
rrl 1474901 n.1244A>G non_coding_transcript_exon_variant 0.29
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.29
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.18
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.14
rrl 1475756 n.2101_2108delACCCGCAA non_coding_transcript_exon_variant 0.15
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.16
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.16
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.16
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.17
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.17
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.19
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.19
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.2
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.2
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.19
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.16
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.17
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.16
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.12
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.17
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.17
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.16
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.22
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.25
rrl 1476298 n.2641C>A non_coding_transcript_exon_variant 0.25
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.25
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.26
rrl 1476309 n.2652G>T non_coding_transcript_exon_variant 0.25
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.16
inhA 1674162 c.-40C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.24
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519048 p.Gly312Ser missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339417 c.300A>G synonymous_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.16
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568488 c.191delG frameshift_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 1.0
rpoA 3878692 c.-185C>A upstream_gene_variant 0.14
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243580 c.348G>A synonymous_variant 1.0
embA 4244420 c.1188G>C synonymous_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4246534 c.21A>G synonymous_variant 0.13
embB 4246584 p.Arg24Pro missense_variant 0.43
embB 4247578 c.1065G>A synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269864 c.-32delG upstream_gene_variant 1.0
whiB6 4338361 p.Arg54Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 0.98