TB-Profiler result

Run: SRR6398019
Summary

Run ID: SRR6398019

Sample name:

Date: 04-04-2023 14:21:34

Number of reads: 4072827

Percentage reads mapped: 97.97

Strain: lineage4.1.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H 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 8010 p.Ser237Ala missense_variant 0.99
gyrA 8317 p.Thr339Ile missense_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.98
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407338 c.3G>A start_lost 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.11
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.1
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.11
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.11
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.1
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.1
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.15
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.12
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.12
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.11
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.12
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.14
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.14
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.2
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.22
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.2
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.17
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.25
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 0.15
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.15
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.14
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.14
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.2
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.13
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.13
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.13
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.16
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.19
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.17
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.2
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.2
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.19
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.31
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.2
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.21
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.23
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.13
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.17
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.14
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.14
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.15
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.12
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243496 c.264G>A synonymous_variant 1.0
embB 4246509 c.-5C>T upstream_gene_variant 1.0
aftB 4268629 p.Gly70Ser missense_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0