TB-Profiler result

Run: SRR4033257
Summary

Run ID: SRR4033257

Sample name:

Date: 04-04-2023 05:57:02

Number of reads: 1129792

Percentage reads mapped: 99.77

Strain: lineage4.8.1

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
lineage4.8.1 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8310 c.1009C>T synonymous_variant 0.12
ccsA 620420 p.Ser177Trp missense_variant 0.1
ccsA 620702 p.Ala271Glu missense_variant 0.12
rpoC 766067 p.Glu900* stop_gained 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800899 p.Ala31Thr missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471903 n.58A>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476512 n.2855C>A non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.14
Rv1979c 2221977 c.1188G>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.35
folC 2746588 c.1011C>T synonymous_variant 0.12
pepQ 2859596 p.Ala275Thr missense_variant 0.15
ribD 2987509 p.Ala224Val missense_variant 0.18
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fbiD 3339741 c.624G>T synonymous_variant 0.67
fbiB 3642874 p.Leu447Arg missense_variant 1.0
alr 3840656 c.765C>T synonymous_variant 0.12
clpC1 4038857 c.1848C>A synonymous_variant 0.43
embC 4239842 c.-21C>A upstream_gene_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242705 c.2844_2845delCG frameshift_variant 0.15
embA 4245798 c.2568delG frameshift_variant 0.11
embA 4246230 p.Ala1000Thr missense_variant 0.12
ubiA 4269259 p.Arg192His missense_variant 0.15
ethR 4327771 p.Leu75Met missense_variant 0.12
whiB6 4338325 p.Ala66Asp missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0