TB-Profiler result

Run: ERR330733
Summary

Run ID: ERR330733

Sample name:

Date: 01-04-2023 01:47:48

Number of reads: 3637257

Percentage reads mapped: 99.25

Strain: lineage1.2.2.2

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 Indo-Oceanic EAI RD239 0.99
lineage1.2.2 Indo-Oceanic EAI1 RD239 0.98
lineage1.2.2.2 Indo-Oceanic NA RD239 0.98
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 5075 c.-165C>T upstream_gene_variant 0.99
gyrB 5530 c.291C>T synonymous_variant 0.99
gyrB 6112 p.Met291Ile missense_variant 0.98
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.99
gyrA 9143 c.1842T>C synonymous_variant 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.97
ccsA 620586 c.696C>T synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.98
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
mmpL5 777155 c.1326G>C synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302948 c.18T>G synonymous_variant 0.99
embR 1417019 p.Cys110Tyr missense_variant 1.0
embR 1417484 c.-137C>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472194 n.349G>A non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.94
PPE35 2167926 p.Leu896Ser missense_variant 0.99
PPE35 2168742 p.Gly624Asp missense_variant 0.99
Rv1979c 2222308 p.Asp286Gly missense_variant 0.97
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.98
ahpC 2726051 c.-142G>A upstream_gene_variant 0.99
ahpC 2726440 c.253delG frameshift_variant 0.95
Rv2752c 3064889 p.Lys435Glu missense_variant 0.95
Rv2752c 3065829 p.Ile121Met missense_variant 0.96
Rv2752c 3066103 p.Asn30Ser missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.99
ald 3086987 p.Gln56His missense_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 0.97
fprA 3473903 c.-104A>G upstream_gene_variant 0.96
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 0.98
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475270 p.His422Asp missense_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 1.0
alr 3841568 c.-148G>A upstream_gene_variant 1.0
alr 3841570 c.-151delA upstream_gene_variant 1.0
alr 3841574 c.-154T>G upstream_gene_variant 1.0
alr 3841578 c.-158G>T upstream_gene_variant 1.0
alr 3841582 c.-162A>G upstream_gene_variant 1.0
alr 3841584 c.-164C>A upstream_gene_variant 1.0
alr 3841589 c.-170delG upstream_gene_variant 1.0
clpC1 4040517 p.Val63Ala missense_variant 0.96
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 4245969 p.Pro913Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 0.97
aftB 4269606 c.-770T>C upstream_gene_variant 0.99
ethA 4326439 p.Asn345Lys missense_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.99
whiB6 4338635 c.-114A>C upstream_gene_variant 0.95
gid 4407588 c.615A>G synonymous_variant 0.98
gid 4407873 c.330G>T synonymous_variant 0.96
gid 4408003 p.Asp67Gly missense_variant 0.99