TB-Profiler result

Run: SRR7131071
Summary

Run ID: SRR7131071

Sample name:

Date: 04-04-2023 18:44:10

Number of reads: 738253

Percentage reads mapped: 99.99

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
gyrA 9521 c.2220C>T synonymous_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575386 c.39C>T synonymous_variant 0.11
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778083 p.Pro133Leu missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471969 n.124T>C non_coding_transcript_exon_variant 0.17
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.1
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.1
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.12
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.17
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.11
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.12
rrl 1474476 n.819C>G non_coding_transcript_exon_variant 0.13
rrl 1474483 n.826C>G non_coding_transcript_exon_variant 0.13
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.18
rrl 1474528 n.871T>A non_coding_transcript_exon_variant 0.18
rrl 1474529 n.872A>G non_coding_transcript_exon_variant 0.18
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.22
rrl 1474540 n.883T>C non_coding_transcript_exon_variant 0.22
rrl 1474541 n.884G>T non_coding_transcript_exon_variant 0.22
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.22
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.22
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.22
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.22
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.33
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.33
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.43
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.38
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.38
rrl 1476384 n.2727G>A non_coding_transcript_exon_variant 0.29
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.3
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.3
rrl 1476625 n.2968C>T non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154630 c.1482T>C synonymous_variant 0.11
PPE35 2170590 p.Pro8Gln missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289195 p.Gly16Val missense_variant 0.1
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2715535 c.-203T>C upstream_gene_variant 0.1
folC 2746302 p.Ala433Thr missense_variant 0.11
Rv2752c 3065779 p.Val138Ala missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449194 p.Gly231Ser missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612472 c.645C>T synonymous_variant 0.12
Rv3236c 3612503 p.His205Arg missense_variant 0.14
Rv3236c 3612897 p.Gly74Cys missense_variant 0.13
clpC1 4040873 c.-169T>C upstream_gene_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4246048 p.Ala939Val missense_variant 0.12
embB 4246584 p.Arg24Pro missense_variant 0.4
aftB 4267857 p.Ile327Asn missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0