TB-Profiler result

Run: ERR11050180
Summary

Run ID: ERR11050180

Sample name:

Date: 02-04-2023 14:58:20

Number of reads: 473520

Percentage reads mapped: 99.51

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
gyrB 6438 p.Pro400Arg missense_variant 1.0
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 9362 c.2061C>T synonymous_variant 0.18
fgd1 490907 p.Gln42Pro missense_variant 0.2
fgd1 491315 p.Gly178Ala missense_variant 0.29
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576489 p.Val381Gly missense_variant 1.0
mshA 576606 p.Ala420Gly missense_variant 0.29
ccsA 620243 p.Cys118Ser missense_variant 0.17
ccsA 620496 c.606G>A synonymous_variant 0.14
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 763121 p.Asn1105Lys missense_variant 0.25
rpoC 763581 p.Lys71Arg missense_variant 0.13
rpoC 764367 p.Gly333Ala missense_variant 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765476 p.Arg703Cys missense_variant 0.12
rpoC 766239 p.Ile957Ser missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776057 c.2424G>T synonymous_variant 0.29
mmpL5 777883 p.Gly200Arg missense_variant 0.6
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303157 p.His76Pro missense_variant 0.27
fbiC 1305439 p.Ala837Pro missense_variant 0.29
embR 1416618 p.Gly244Ser missense_variant 0.15
embR 1416696 p.Ser218Ala missense_variant 0.13
embR 1416906 p.Pro148Ser missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.27
rrl 1476148 n.2491G>A non_coding_transcript_exon_variant 0.11
fabG1 1673564 p.Val42Gly missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101925 c.1117delG frameshift_variant 0.17
PPE35 2169063 p.Met517Lys missense_variant 0.25
PPE35 2170530 p.Ala28Val missense_variant 0.12
Rv1979c 2222664 c.501G>T synonymous_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289070 p.Phe58Ile missense_variant 0.29
kasA 2517996 c.-119T>G upstream_gene_variant 0.22
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.33
folC 2746245 p.Ala452Thr missense_variant 0.25
folC 2746262 p.Leu446Gln missense_variant 0.25
folC 2746525 c.1074G>C synonymous_variant 0.33
folC 2746665 p.Phe312Val missense_variant 0.67
folC 2747576 p.Pro8Leu missense_variant 0.2
pepQ 2860163 p.Arg86Gly missense_variant 0.5
ribD 2986818 c.-21C>T upstream_gene_variant 0.17
ribD 2987093 c.255G>T synonymous_variant 0.2
ribD 2987196 p.Val120Ile missense_variant 0.25
ribD 2987595 p.Thr253Ser missense_variant 0.11
Rv2752c 3064823 p.Val457Leu missense_variant 0.25
Rv2752c 3065649 c.543T>A synonymous_variant 0.18
thyX 3068064 c.-119G>A upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086944 p.Gly42Asp missense_variant 0.22
fbiD 3339311 p.Asp65Ala missense_variant 0.33
Rv3083 3448338 c.-166A>G upstream_gene_variant 0.25
Rv3083 3449295 c.792G>A synonymous_variant 0.15
Rv3083 3449690 p.Thr396Ile missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474047 p.Ser14Trp missense_variant 0.38
fbiA 3640738 p.Met66Val missense_variant 0.12
fbiA 3641344 p.Thr268Pro missense_variant 0.4
alr 3840357 p.Leu355Arg missense_variant 0.56
alr 3841384 p.Asp13His missense_variant 0.22
rpoA 3878641 c.-134C>G upstream_gene_variant 0.67
clpC1 4038596 p.Lys703Asn missense_variant 0.17
clpC1 4038759 p.Asp649Val missense_variant 0.12
clpC1 4040235 p.Gly157Ala missense_variant 0.2
clpC1 4040550 p.Leu52Trp missense_variant 0.38
panD 4043907 c.375C>A synonymous_variant 0.25
embC 4239973 c.111T>C synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245841 p.Val870Gly missense_variant 0.5
embB 4246034 c.-480G>A upstream_gene_variant 0.17
embB 4246527 p.Ala5Gly missense_variant 0.67
embB 4247614 c.1101T>G synonymous_variant 0.15
embB 4248324 p.Ala604Val missense_variant 0.4
embB 4249063 c.2550C>T synonymous_variant 0.33
aftB 4267981 p.Arg286Gly missense_variant 0.29
aftB 4268619 p.Val73Gly missense_variant 0.25
aftB 4269381 c.-545C>T upstream_gene_variant 0.2
ubiA 4269420 p.Tyr138* stop_gained 0.18
ethR 4327609 p.Ser21Ala missense_variant 0.22
whiB6 4338296 p.Trp76Gly missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407714 c.489A>G synonymous_variant 0.33
gid 4408003 p.Asp67Gly missense_variant 0.33
gid 4408461 c.-259A>T upstream_gene_variant 0.18