TB-Profiler result

Run: ERR11043741
Summary

Run ID: ERR11043741

Sample name:

Date: 31-03-2023 11:40:11

Number of reads: 3419537

Percentage reads mapped: 99.49

Strain: lineage3.1.2;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
lineage3 East-African-Indian CAS RD750 0.59
lineage1 Indo-Oceanic EAI RD239 0.39
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.37
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 0.68
lineage1.1.2 Indo-Oceanic EAI3;EAI5 RD239 0.4
lineage3.1.2 East-African-Indian CAS;CAS2 RD750 0.61
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 0.43
gyrB 6124 c.885C>T synonymous_variant 0.45
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.43
gyrA 9047 c.1746C>T synonymous_variant 0.38
gyrA 9143 c.1842T>C synonymous_variant 0.36
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9443 c.2142G>A synonymous_variant 0.34
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576000 p.Asp218Ala missense_variant 0.4
rpoB 759746 c.-61C>T upstream_gene_variant 0.61
rpoB 760490 c.684C>T synonymous_variant 0.43
rpoC 762434 c.-936T>G upstream_gene_variant 0.65
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763233 p.Glu1143Gln missense_variant 0.39
rpoC 763419 p.Ala17Gly missense_variant 0.37
rpoC 763884 p.Ala172Val missense_variant 0.4
rpoC 763886 c.517C>A synonymous_variant 0.4
rpoC 765171 p.Pro601Leu missense_variant 0.38
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776395 p.Phe696Leu missense_variant 0.45
mmpL5 777281 c.1200G>A synonymous_variant 0.43
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 0.34
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475159 n.1502G>A non_coding_transcript_exon_variant 0.37
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 0.47
PPE35 2168604 p.Pro670Leu missense_variant 0.65
Rv1979c 2222308 p.Asp286Gly missense_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.65
pncA 2289365 c.-125delC upstream_gene_variant 0.71
kasA 2518132 c.18C>T synonymous_variant 0.47
ahpC 2726051 c.-142G>A upstream_gene_variant 0.34
ahpC 2726105 c.-88G>A upstream_gene_variant 0.68
Rv2752c 3064632 c.1560C>T synonymous_variant 0.42
Rv2752c 3065305 p.Ala296Val missense_variant 0.4
Rv2752c 3066099 p.Met31Ile missense_variant 0.68
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 0.45
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 0.34
fprA 3475159 p.Asn385Asp missense_variant 0.38
Rv3236c 3612372 p.Leu249Val missense_variant 0.65
ddn 3987057 p.Arg72Trp missense_variant 0.36
clpC1 4040517 p.Val63Ala missense_variant 0.42
embC 4240671 p.Thr270Ile missense_variant 0.34
embC 4241042 p.Asn394Asp missense_variant 0.34
embC 4242075 p.Arg738Gln missense_variant 0.56
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 0.4
embA 4245969 p.Pro913Ser missense_variant 0.38
embB 4246584 p.Arg24Pro missense_variant 0.26
embB 4247646 p.Glu378Ala missense_variant 0.39
embB 4248369 p.Leu619Arg missense_variant 0.6
ubiA 4269387 p.Glu149Asp missense_variant 0.4
aftB 4269606 c.-770T>C upstream_gene_variant 0.35
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.34
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 0.42