TB-Profiler result

Run: SRR6982516
Summary

Run ID: SRR6982516

Sample name:

Date: 04-04-2023 18:39:52

Number of reads: 1650295

Percentage reads mapped: 88.45

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 0.99
lineage4.4.1.1 Euro-American S;Orphans None 0.99
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 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 619831 c.-60T>G upstream_gene_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.14
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.14
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.12
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrs 1472951 n.1106T>C non_coding_transcript_exon_variant 0.15
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.15
rrs 1472956 n.1111T>G non_coding_transcript_exon_variant 0.14
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.15
rrs 1472970 n.1126delG non_coding_transcript_exon_variant 0.13
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.13
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.13
rrs 1472975 n.1130T>G non_coding_transcript_exon_variant 0.13
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.13
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.13
rrs 1472990 n.1145A>C non_coding_transcript_exon_variant 0.13
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.13
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.13
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.14
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.13
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.12
rrl 1476328 n.2671_2672insT non_coding_transcript_exon_variant 0.89
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.15
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.16
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.21
rrl 1476356 n.2699C>T non_coding_transcript_exon_variant 0.2
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.22
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.27
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.27
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.27
rrl 1476384 n.2727G>A non_coding_transcript_exon_variant 0.26
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.26
rrl 1476418 n.2761G>C non_coding_transcript_exon_variant 0.26
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.26
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.28
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.28
rrl 1476435 n.2778C>G non_coding_transcript_exon_variant 0.27
rrl 1476458 n.2801T>G non_coding_transcript_exon_variant 0.27
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.23
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.22
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3878512 c.-5A>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267437 p.Arg467Leu missense_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0