TB-Profiler result

Run: ERR4797974
Summary

Run ID: ERR4797974

Sample name:

Date: 01-04-2023 08:02:24

Number of reads: 3090266

Percentage reads mapped: 95.96

Strain: lineage1.1.2

Drug-resistance: Other

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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
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 1.0
lineage1.1.2 Indo-Oceanic EAI3;EAI5 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
panD 4044137 p.Ile49Val missense_variant 1.0 pyrazinamide
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 5770 c.531C>T synonymous_variant 1.0
gyrB 6112 p.Met291Ile missense_variant 1.0
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 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
mshA 576108 p.Ala254Gly missense_variant 0.35
mshA 576482 p.Val379Leu missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
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
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
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.12
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.12
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.13
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.11
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.11
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.11
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.11
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.11
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.11
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.11
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.11
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.11
rrl 1474694 n.1037C>T non_coding_transcript_exon_variant 0.12
rrl 1475740 n.2083G>C non_coding_transcript_exon_variant 0.12
rrl 1475747 n.2090A>G non_coding_transcript_exon_variant 0.12
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.11
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.11
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.11
rrl 1475781 n.2124T>C non_coding_transcript_exon_variant 0.1
rrl 1475788 n.2131C>G non_coding_transcript_exon_variant 0.12
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.12
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.12
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.15
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
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
PPE35 2170272 c.340dupC frameshift_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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
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
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4242262 p.Met800Ile 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 4246548 p.Pro12Gln missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.2
embB 4247084 p.Asp191Tyr missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4268461 p.Ile126Val missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326553 p.His307Gln missense_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