TB-Profiler result

Run: ERR6336794
Summary

Run ID: ERR6336794

Sample name:

Date: 02-04-2023 02:03:56

Number of reads: 2704173

Percentage reads mapped: 87.69

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 0.21
rpoB 761152 p.Leu449Gln missense_variant 0.13
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 1472744 n.899A>G non_coding_transcript_exon_variant 0.1
rrs 1472953 n.1109_1112delTCTC non_coding_transcript_exon_variant 0.23
rrs 1472959 n.1114_1115insTTTA non_coding_transcript_exon_variant 0.23
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.23
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.27
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.28
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.28
rrs 1472991 n.1146G>A non_coding_transcript_exon_variant 0.28
rrs 1472992 n.1147A>T non_coding_transcript_exon_variant 0.28
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.27
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.28
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.27
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.28
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.27
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.24
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.15
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.13
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.99
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.12
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.19
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.27
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.27
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.32
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.34
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.35
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.36
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.35
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.31
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.28
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.28
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.24
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.18
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.14
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.23
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.24
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.2
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.19
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.2
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.2
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.2
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.22
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.23
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.24
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.26
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.36
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.41
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.47
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.47
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.47
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.45
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.46
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.39
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.38
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.37
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.37
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.36
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.28
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.28
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.27
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.26
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.26
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.24
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.25
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.25
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.24
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.24
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.25
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.22
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.2
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.2
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.17
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.12
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 0.26
PPE35 2170053 p.Thr187Ser missense_variant 0.29
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 0.99
fbiD 3339417 c.300A>G synonymous_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.48
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 0.99
whiB7 3568488 c.191delG frameshift_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 1.0
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 4246544 p.Thr11Pro missense_variant 0.31
embB 4246548 p.Pro12Gln missense_variant 0.39
embB 4246555 c.42G>C synonymous_variant 0.34
embB 4246556 p.Ala15Pro missense_variant 0.36
embB 4246563 p.Leu17Trp missense_variant 0.46
embB 4246567 c.54G>T synonymous_variant 0.43
embB 4247578 c.1065G>A synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4266996 p.Gly614Glu 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 1.0