TB-Profiler result

Run: SRR18002951
Summary

Run ID: SRR18002951

Sample name:

Date: 03-04-2023 19:11:12

Number of reads: 2624001

Percentage reads mapped: 85.66

Strain: lineage4.5

Drug-resistance: Other

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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
lineage4.5 Euro-American H;T RD122 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
gid 4407851 c.351delG frameshift_variant 1.0 streptomycin
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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777498 p.Arg328Gln missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.33
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.18
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.12
rrl 1473831 n.174G>A non_coding_transcript_exon_variant 0.12
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.5
rrl 1475820 n.2163C>T non_coding_transcript_exon_variant 0.15
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.12
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 0.57
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.86
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.86
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 1.0
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.78
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.89
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.78
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.75
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.78
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.67
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.58
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.54
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.45
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.45
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.33
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.33
rrl 1476491 n.2834T>C non_coding_transcript_exon_variant 0.27
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.2
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.3
rrl 1476521 n.2864C>T non_coding_transcript_exon_variant 0.25
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.25
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.25
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.4
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 0.95
rpoA 3878639 c.-132C>G upstream_gene_variant 0.1
clpC1 4038318 p.Pro796Leu missense_variant 1.0
clpC1 4039919 c.786C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.17
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.16
embB 4246556 p.Ala15Pro missense_variant 0.18
embB 4246563 p.Leu17Trp missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0