TB-Profiler result

Run: ERR11050195
Summary

Run ID: ERR11050195

Sample name:

Date: 02-04-2023 15:22:16

Number of reads: 545984

Percentage reads mapped: 99.44

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 8135 c.834C>G synonymous_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9661 p.Ala787Gly missense_variant 0.29
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575287 c.-61A>G upstream_gene_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576099 p.Asp251Val missense_variant 0.5
mshA 576113 p.Arg256Gly missense_variant 0.5
ccsA 620019 c.129A>G synonymous_variant 0.44
rpoB 759705 c.-102T>C upstream_gene_variant 0.22
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761482 p.Ala559Gly missense_variant 0.29
rpoC 764534 p.Arg389Gly missense_variant 0.5
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766391 p.Thr1008Ala missense_variant 0.2
rpoC 766973 p.Ala1202Pro missense_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.36
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406870 c.471C>T synonymous_variant 1.0
Rv1258c 1407006 p.Leu112Arg missense_variant 0.38
Rv1258c 1407069 p.Leu91Arg missense_variant 0.18
embR 1416430 c.918G>C synonymous_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473412 n.-246T>G upstream_gene_variant 0.25
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.2
fabG1 1673553 p.Asp38Glu missense_variant 0.25
inhA 1673568 c.-634C>G upstream_gene_variant 0.29
fabG1 1673802 p.Gln121His missense_variant 0.12
rpsA 1834131 p.Glu197Ala missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154980 c.1132C>T synonymous_variant 0.11
katG 2155888 p.Ala75Val missense_variant 0.14
PPE35 2167935 c.2677delA frameshift_variant 0.18
PPE35 2169521 c.1092G>A synonymous_variant 0.14
PPE35 2170037 c.576C>G synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290218 c.-977T>G upstream_gene_variant 0.4
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518166 p.Ala18Pro missense_variant 0.17
kasA 2519071 p.Asp319Glu missense_variant 0.43
eis 2714409 c.924T>G synonymous_variant 0.4
eis 2715432 c.-100C>G upstream_gene_variant 0.14
folC 2746850 p.Val250Glu missense_variant 0.29
pepQ 2859411 c.1008C>G synonymous_variant 0.25
pepQ 2859933 c.486C>G synonymous_variant 0.33
ribD 2987281 p.Val148Ala missense_variant 0.29
Rv2752c 3064823 p.Val457Leu missense_variant 0.22
Rv2752c 3065293 p.Val300Asp missense_variant 0.25
thyX 3067290 p.Leu219Pro missense_variant 0.4
thyA 3074203 p.Leu90His missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.38
fbiD 3339523 p.Arg136Trp missense_variant 0.13
fbiD 3339716 p.Gln200Pro missense_variant 0.5
Rv3083 3449738 p.His412Arg missense_variant 0.14
Rv3083 3449956 p.Phe485Ile missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474047 p.Ser14Trp missense_variant 0.31
fprA 3474052 p.Phe16Val missense_variant 0.29
whiB7 3568555 c.123_124dupAC frameshift_variant 0.14
Rv3236c 3612727 c.389delC frameshift_variant 0.22
Rv3236c 3612965 p.Val51Ala missense_variant 0.14
fbiB 3642205 p.Asp224Ala missense_variant 0.29
fbiB 3642635 c.1101C>T synonymous_variant 0.13
rpoA 3878515 c.-8G>C upstream_gene_variant 0.25
clpC1 4039314 p.Arg464His missense_variant 0.18
clpC1 4040550 p.Leu52Trp missense_variant 0.22
embC 4239807 c.-56G>A upstream_gene_variant 0.25
embC 4241346 p.Gly495Asp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244571 p.Arg447Gly missense_variant 0.43
embB 4246833 p.Lys107Met missense_variant 0.29
ubiA 4268944 p.Ala297Val missense_variant 0.14
ubiA 4269308 c.526delT frameshift_variant 0.18
ubiA 4269367 p.Ala156Val missense_variant 0.2
ubiA 4269446 c.387delC frameshift_variant 0.13
whiB6 4338200 p.Asp108His missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407624 c.579G>T synonymous_variant 0.4
gid 4408096 p.Val36Gly missense_variant 0.22