TB-Profiler result

Run: ERR4800222
Summary

Run ID: ERR4800222

Sample name:

Date: 01-04-2023 09:40:20

Number of reads: 194067

Percentage reads mapped: 93.94

Strain: lineage1.1.2

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
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.95
lineage1.1.2 Indo-Oceanic EAI3;EAI5 RD239 0.99
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 5743 c.504G>C synonymous_variant 0.29
gyrB 5933 p.Ser232Thr missense_variant 0.17
gyrB 6124 c.885C>T synonymous_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 8943 p.Gly548Trp missense_variant 0.17
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763528 c.159G>C synonymous_variant 0.17
rpoC 763531 c.162G>C synonymous_variant 0.17
rpoC 763534 c.165T>C synonymous_variant 0.17
rpoC 763537 c.168C>G synonymous_variant 0.17
rpoC 763546 c.177A>G synonymous_variant 0.2
rpoC 763570 c.201G>C synonymous_variant 0.21
rpoC 763594 c.225C>T synonymous_variant 0.27
rpoC 763603 c.234C>T synonymous_variant 0.25
rpoC 763621 c.252C>T synonymous_variant 0.25
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_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
rplC 800918 p.Thr37Asn missense_variant 0.18
rplC 801103 p.Gln99* stop_gained 0.4
Rv1258c 1406503 p.Val280Leu missense_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472951 n.1106T>C non_coding_transcript_exon_variant 0.29
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.4
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.4
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.33
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.25
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.43
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.43
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.43
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.38
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.25
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.25
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.29
rrl 1475060 n.1404delC non_coding_transcript_exon_variant 0.5
rrl 1475065 n.1408G>A non_coding_transcript_exon_variant 0.5
rrl 1475067 n.1410A>G non_coding_transcript_exon_variant 0.5
rrl 1475076 n.1419C>A non_coding_transcript_exon_variant 0.5
rrl 1475079 n.1422T>C non_coding_transcript_exon_variant 0.5
rrl 1475081 n.1424C>T non_coding_transcript_exon_variant 0.5
rrl 1475108 n.1451C>T non_coding_transcript_exon_variant 0.5
rrl 1475111 n.1454G>A non_coding_transcript_exon_variant 0.67
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.67
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.67
rrl 1475119 n.1462C>T non_coding_transcript_exon_variant 0.67
fabG1 1673558 p.His40Pro missense_variant 0.29
rpsA 1833535 c.-7C>A upstream_gene_variant 0.2
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 2167983 p.Gly877Asp missense_variant 1.0
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
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
Rv2752c 3066254 c.-63G>A upstream_gene_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
Rv3083 3449521 p.Asp340Asn missense_variant 0.18
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
clpC1 4039753 p.Gln318Lys missense_variant 0.25
clpC1 4040517 p.Val63Ala missense_variant 0.83
embC 4240409 p.Pro183Ala missense_variant 0.4
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 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_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
ethA 4326338 p.Asn379Ser missense_variant 0.4
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