TB-Profiler result

Run: ERR4817968
Summary

Run ID: ERR4817968

Sample name:

Date: 01-04-2023 15:17:39

Number of reads: 741175

Percentage reads mapped: 99.37

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 5472 p.Ala78Asp missense_variant 1.0
gyrB 6972 p.Pro578Arg missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491319 c.537G>A synonymous_variant 0.12
fgd1 491410 p.Ala210Thr missense_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575590 c.243T>A synonymous_variant 0.13
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576366 p.Phe340Ser missense_variant 0.15
ccsA 619768 c.-123G>C upstream_gene_variant 0.1
ccsA 619794 c.-97C>T upstream_gene_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.14
rpoB 760848 p.Thr348Pro missense_variant 0.11
rpoB 761818 p.Arg671Gln missense_variant 0.14
rpoB 762487 p.Pro894Gln missense_variant 0.13
rpoB 763010 p.Trp1068* stop_gained 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765423 p.Asn685Ser missense_variant 0.11
rpoC 766136 p.Arg923Trp missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpR5 779003 p.Asp5Gly missense_variant 1.0
mmpL5 779070 c.-590G>A upstream_gene_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 0.96
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781616 c.57C>T synonymous_variant 0.11
fbiC 1303016 p.Val29Gly missense_variant 0.22
fbiC 1303036 p.Gly36Ser missense_variant 0.22
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1417021 c.327T>A synonymous_variant 0.15
embR 1417251 p.Pro33Thr missense_variant 0.13
atpE 1461176 p.Glu44Asp missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471820 n.-26T>C upstream_gene_variant 0.15
rrs 1471927 n.82T>C non_coding_transcript_exon_variant 0.14
rpsA 1833694 c.153G>A synonymous_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834291 c.750G>A synonymous_variant 0.11
rpsA 1834315 c.774C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918340 p.Thr134Ile missense_variant 0.17
tlyA 1918364 p.Glu142Gly missense_variant 0.12
ndh 2103043 c.-1C>A upstream_gene_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168049 p.Gly855Ala missense_variant 0.12
PPE35 2168190 p.Gly808Ala missense_variant 1.0
PPE35 2169317 c.1296C>T synonymous_variant 0.2
PPE35 2170781 c.-169A>G upstream_gene_variant 0.1
Rv1979c 2221942 p.Arg408Gln missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714566 p.Leu256Pro missense_variant 0.18
eis 2714602 c.730delG frameshift_variant 0.11
ahpC 2726506 p.Thr105Met missense_variant 0.12
pepQ 2860088 p.Ala111Ser missense_variant 0.11
thyX 3067952 c.-7G>A upstream_gene_variant 0.13
thyA 3074031 c.441T>C synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087541 p.Val241Glu missense_variant 0.12
fbiD 3339252 c.135C>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474143 p.Trp46Tyr missense_variant 0.19
fprA 3474165 c.159C>G synonymous_variant 0.11
fprA 3475266 c.1260G>A synonymous_variant 0.13
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640957 p.Gly139Arg missense_variant 1.0
rpoA 3877569 c.939G>A synonymous_variant 0.12
clpC1 4040316 p.Glu130Gly missense_variant 0.13
panD 4044385 c.-104A>T upstream_gene_variant 0.17
embC 4242089 p.Ala743Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244282 c.1050C>T synonymous_variant 0.25
embA 4244395 p.Gly388Asp missense_variant 0.12
embB 4246694 c.186delG frameshift_variant 0.12
embB 4246718 c.209delC frameshift_variant 0.12
embB 4247949 p.Val479Ala missense_variant 0.12
embB 4249605 p.Gly1031Val missense_variant 0.22
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267656 p.Gly394Asp missense_variant 0.12
aftB 4268799 p.Val13Gly missense_variant 0.2
aftB 4269765 c.-929G>A upstream_gene_variant 0.13
ethA 4326801 p.Leu225Ile missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 0.96