TB-Profiler result

Run: ERR11050230
Summary

Run ID: ERR11050230

Sample name:

Date: 02-04-2023 17:20:11

Number of reads: 853736

Percentage reads mapped: 99.47

Strain: lineage4.1.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 0.98
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 5241 p.Val1Ala missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 0.94
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7728 p.Arg143Gly missense_variant 0.25
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9647 c.2346C>G synonymous_variant 0.4
fgd1 490998 c.216T>C synonymous_variant 0.1
mshA 575420 p.Thr25Pro missense_variant 0.2
mshA 576453 p.Val369Gly missense_variant 0.67
mshA 576456 p.Val370Gly missense_variant 0.67
mshA 576606 p.Ala420Gly missense_variant 0.36
mshA 576609 p.Ala421Gly missense_variant 0.33
rpoC 764117 p.Glu250Lys missense_variant 0.12
rpoC 764367 p.Gly333Ala missense_variant 0.2
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766989 p.Leu1207Pro missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777127 p.Ser452Arg missense_variant 0.23
mmpL5 777883 p.Gly200Arg missense_variant 0.3
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304247 c.1317C>T synonymous_variant 0.12
embR 1416430 c.918G>C synonymous_variant 0.25
atpE 1461106 p.Ala21Gly missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475265 n.1608G>A non_coding_transcript_exon_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.2
fabG1 1673553 p.Asp38Glu missense_variant 0.29
fabG1 1674074 p.Gly212Asp missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.33
tlyA 1918459 p.Asp174His missense_variant 0.22
ndh 2101889 p.Val385Ala missense_variant 0.1
ndh 2102212 c.831G>A synonymous_variant 0.22
katG 2153999 p.Arg705Trp missense_variant 0.14
katG 2154021 c.2091C>T synonymous_variant 0.11
PPE35 2168229 p.Thr795Ile missense_variant 0.11
Rv1979c 2221822 c.1340_1342delTCT disruptive_inframe_deletion 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289928 c.-687C>A upstream_gene_variant 0.13
ahpC 2726210 c.18T>C synonymous_variant 1.0
folC 2746143 p.Pro486Ser missense_variant 0.22
pepQ 2859931 p.Leu163Arg missense_variant 0.25
pepQ 2859933 c.486C>G synonymous_variant 0.15
Rv2752c 3064823 p.Val457Leu missense_variant 0.27
Rv2752c 3066026 p.Gly56Ser missense_variant 1.0
thyX 3067405 p.Thr181Pro missense_variant 0.22
thyX 3067963 c.-18G>C upstream_gene_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.21
fbiD 3339315 p.Glu66Asp missense_variant 0.22
Rv3083 3449425 p.Thr308Ala missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474052 p.Phe16Val missense_variant 0.38
Rv3236c 3612187 p.Met310Ile missense_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
alr 3840357 p.Leu355Arg missense_variant 0.25
rpoA 3877553 p.Glu319Lys missense_variant 1.0
clpC1 4039702 p.Asp335His missense_variant 0.25
clpC1 4040550 p.Leu52Trp missense_variant 0.23
clpC1 4040881 c.-177T>G upstream_gene_variant 0.2
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243585 p.Phe118Ser missense_variant 0.22
embA 4243682 c.450T>G synonymous_variant 0.3
embA 4244743 c.1513delC frameshift_variant 0.13
embB 4246527 p.Ala5Gly missense_variant 0.2
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249743 p.Gln1077Pro missense_variant 0.15
aftB 4267400 c.1437G>C synonymous_variant 0.25
aftB 4267978 p.Pro287Ala missense_variant 0.29
aftB 4267981 p.Arg286Gly missense_variant 0.2
ethA 4328415 c.-942A>G upstream_gene_variant 0.21
whiB6 4338200 p.Asp108His missense_variant 0.43
whiB6 4338595 c.-75delG upstream_gene_variant 1.0