TB-Profiler result

Run: ERR2229158
Summary

Run ID: ERR2229158

Sample name:

Date: 31-03-2023 16:45:23

Number of reads: 363048

Percentage reads mapped: 99.25

Strain: lineage4

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
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
gyrB 6027 p.His263Arg missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7724 p.Met141Ile missense_variant 0.18
gyrA 7856 p.Met185Ile missense_variant 0.4
gyrA 8062 p.Arg254Leu missense_variant 0.25
mshA 575990 p.Val215Phe missense_variant 0.33
mshA 576299 p.Glu318Lys missense_variant 0.67
rpoB 761439 p.Asp545Asn missense_variant 0.4
rpoB 761629 p.Gln608Arg missense_variant 0.22
rpoC 765517 c.2148C>G synonymous_variant 0.25
mmpL5 776315 p.His722Gln missense_variant 0.2
mmpL5 777982 p.Glu167Lys missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304256 c.1326G>T synonymous_variant 0.5
fbiC 1304988 c.2058G>T synonymous_variant 0.17
embR 1417261 c.87A>T synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.22
rrl 1475333 n.1676T>A non_coding_transcript_exon_variant 0.15
rrl 1476795 n.3138A>C splice_region_variant&non_coding_transcript_exon_variant 0.12
fabG1 1673609 p.Gly57Val missense_variant 0.18
ndh 2103006 p.Arg13Ser missense_variant 0.18
PPE35 2167745 p.Thr956Arg missense_variant 0.18
PPE35 2167865 c.2748G>C synonymous_variant 0.17
PPE35 2167868 c.2745A>C synonymous_variant 0.15
PPE35 2167965 p.Ala883Gly missense_variant 0.22
PPE35 2167967 c.2646A>C synonymous_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168882 c.1731T>A synonymous_variant 0.33
PPE35 2169169 c.1444T>C synonymous_variant 0.18
PPE35 2169170 c.1443C>G synonymous_variant 0.2
PPE35 2169176 c.1437G>A synonymous_variant 0.18
PPE35 2169179 c.1434C>G synonymous_variant 0.2
PPE35 2169269 c.1344A>G synonymous_variant 0.16
PPE35 2169272 c.1341C>G synonymous_variant 0.16
PPE35 2169278 c.1335T>C synonymous_variant 0.2
PPE35 2169281 c.1332T>G synonymous_variant 0.2
PPE35 2169287 c.1326T>C synonymous_variant 0.11
PPE35 2169293 c.1320T>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.33
PPE35 2170053 p.Thr187Ser missense_variant 0.41
PPE35 2170066 p.Ala183Thr missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714352 c.981C>T synonymous_variant 0.17
eis 2715101 p.Pro78Ser missense_variant 0.29
ahpC 2726541 p.Glu117Gln missense_variant 0.13
folC 2746341 p.Ala420Ser missense_variant 0.67
ribD 2987507 c.669G>A synonymous_variant 0.22
fbiD 3339397 p.Thr94Pro missense_variant 0.29
fprA 3474403 p.Asn133Asp missense_variant 0.2
Rv3236c 3612219 p.Val300Phe missense_variant 0.33
Rv3236c 3612362 p.Thr252Ile missense_variant 0.33
Rv3236c 3612509 p.Gly203Val missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4039090 c.1615C>T synonymous_variant 0.4
clpC1 4039174 p.Glu511Lys missense_variant 0.18
clpC1 4040011 p.Ala232Ser missense_variant 0.18
clpC1 4040319 p.Ala129Asp missense_variant 0.67
panD 4043966 p.Val106Met missense_variant 0.25
embC 4239692 c.-171C>A upstream_gene_variant 0.15
embC 4239904 c.42A>T synonymous_variant 0.25
embC 4242353 p.Gly831* stop_gained 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.5
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4246563 p.Leu17Trp missense_variant 0.5
embB 4246567 c.54G>T synonymous_variant 0.5
embB 4248276 p.Thr588Met missense_variant 0.12
embB 4248605 p.Leu698Met missense_variant 0.22
embB 4249230 p.Gly906Glu missense_variant 0.25
ethA 4327269 p.Trp69Arg missense_variant 0.25
ethA 4328187 c.-714G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408143 c.60G>T synonymous_variant 0.15
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0