TB-Profiler result

Run: ERR257889

Summary

Run ID: ERR257889

Sample name:

Date: 31-03-2023 22:22:08

Number of reads: 685134

Percentage reads mapped: 82.55

Strain: lineage3.1.3

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 1.0
lineage3.1.3 East-African-Indian CAS RD750 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 7048 p.Lys603Asn missense_variant 0.95
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619789 c.-102G>A upstream_gene_variant 0.13
rpoB 762153 p.Ile783Val missense_variant 0.11
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777427 p.Thr352Pro missense_variant 0.38
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461272 c.228C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474241 n.584G>T non_coding_transcript_exon_variant 0.12
inhA 1674952 p.Pro251Ala missense_variant 0.12
rpsA 1834159 c.618G>A synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918474 p.Pro179Ser missense_variant 1.0
tlyA 1918567 p.Ala210Thr missense_variant 0.22
ndh 2102702 p.Ser114Ile missense_variant 0.17
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167851 p.Asn921Ser missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222732 c.432delT frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Gln missense_variant 0.1
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746604 p.Ala332Gly missense_variant 0.17
ribD 2986770 c.-69A>G upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642776 c.1242G>C synonymous_variant 0.2
alr 3841584 c.-164C>A upstream_gene_variant 0.13
clpC1 4039814 c.891C>T synonymous_variant 0.96
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249195 c.2682C>A synonymous_variant 1.0
aftB 4268361 p.Ser159Leu missense_variant 0.13
ethR 4328193 p.Asn215Lys missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407832 p.Val124Gly missense_variant 1.0
gid 4408175 p.Ala10Pro missense_variant 1.0