TB-Profiler result

Run: SRR5074710

Summary

Run ID: SRR5074710

Sample name:

Date: 04-04-2023 09:09:24

Number of reads: 4112888

Percentage reads mapped: 85.67

Strain: lineage4.3.3

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 6408 p.Glu390Gly missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.14
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.3
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.16
rrs 1472545 n.700A>G non_coding_transcript_exon_variant 0.16
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.24
rrs 1472573 n.728C>A non_coding_transcript_exon_variant 0.11
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.14
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.2
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.11
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.2
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.11
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.15
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.18
rrs 1472634 n.789T>C non_coding_transcript_exon_variant 0.11
rrl 1474582 n.925T>A non_coding_transcript_exon_variant 0.12
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.11
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.12
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.12
rrl 1474825 n.1168G>A non_coding_transcript_exon_variant 0.12
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.12
rrl 1474852 n.1195T>C non_coding_transcript_exon_variant 0.13
rrl 1474901 n.1244A>G non_coding_transcript_exon_variant 0.18
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.18
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.18
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.25
rrl 1474921 n.1264C>T non_coding_transcript_exon_variant 0.25
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.11
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.12
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.12
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.11
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.11
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.11
rrl 1475999 n.2342G>T non_coding_transcript_exon_variant 0.11
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.1
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.13
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.16
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.1
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.12
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.12
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.15
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.12
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.11
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.12
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.16
PPE35 2170053 p.Thr187Ser missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641242 p.Arg234Trp missense_variant 0.98
alr 3840200 c.1220dupA frameshift_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.24
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4269300 c.-464G>A upstream_gene_variant 1.0
whiB6 4338312 c.209_210insT frameshift_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0