TB-Profiler result

Run: SRR3675511
Summary

Run ID: SRR3675511

Sample name:

Date: 04-04-2023 05:31:18

Number of reads: 990764

Percentage reads mapped: 97.85

Strain: lineage4.6

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
lineage4.6 Euro-American T;LAM None 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575434 c.87C>T synonymous_variant 1.0
rpoC 763644 p.Met92Thr missense_variant 0.95
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303817 p.Arg296Leu missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.5
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 1.0
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 1.0
rrs 1473122 n.1281delA non_coding_transcript_exon_variant 0.18
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.18
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.18
rrl 1473709 n.52A>G non_coding_transcript_exon_variant 0.18
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 1.0
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 1.0
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 1.0
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 1.0
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.4
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.4
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.4
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.4
rrl 1475767 n.2110_2111insT non_coding_transcript_exon_variant 0.4
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.4
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168080 p.Thr845Ala missense_variant 1.0
PPE35 2170198 p.Ala139Thr missense_variant 1.0
PPE35 2170792 c.-180T>C upstream_gene_variant 1.0
Rv1979c 2222406 c.759G>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726341 p.Val50Gly missense_variant 0.25
pepQ 2860237 p.Arg61His missense_variant 0.12
pepQ 2860360 p.Asp20Gly missense_variant 1.0
Rv3083 3448717 p.Val72Met missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612698 p.Leu140Arg missense_variant 0.64
fbiB 3641831 c.297C>T synonymous_variant 0.15
rpoA 3877713 c.795G>A synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244970 c.1738C>T synonymous_variant 1.0
aftB 4267118 c.1719G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0