TB-Profiler result

Run: SRR4033523
Summary

Run ID: SRR4033523

Sample name:

Date: 04-04-2023 06:08:57

Number of reads: 377590

Percentage reads mapped: 96.16

Strain: lineage2.2

Drug-resistance: Other

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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
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 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
ethA 4326333 p.Ala381Pro missense_variant 1.0 ethionamide
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 6958 p.Trp573Cys missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8963 c.1662C>A synonymous_variant 0.29
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9552 c.2251C>T synonymous_variant 0.29
fgd1 490803 c.21T>C synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781741 p.Val61Asp missense_variant 0.29
Rv1258c 1406191 p.Ala384Thr missense_variant 0.4
embR 1416926 p.Ala141Val missense_variant 0.5
embR 1416930 p.Ala140Ser missense_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472174 n.329C>T non_coding_transcript_exon_variant 0.15
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.18
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.2
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.2
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.2
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.17
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.17
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.17
rrs 1472507 n.662C>T non_coding_transcript_exon_variant 0.33
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.5
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.46
rrs 1472571 n.726G>A non_coding_transcript_exon_variant 0.46
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.38
rrs 1472606 n.761C>G non_coding_transcript_exon_variant 0.38
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.33
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.43
rrs 1472645 n.800G>C non_coding_transcript_exon_variant 0.57
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.4
rrs 1472660 n.815T>A non_coding_transcript_exon_variant 0.29
rrs 1472666 n.821G>T non_coding_transcript_exon_variant 0.33
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.4
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.4
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.4
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.4
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.4
rrs 1472686 n.841G>A non_coding_transcript_exon_variant 0.4
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.4
rrs 1472694 n.849C>A non_coding_transcript_exon_variant 0.33
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.18
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.2
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.13
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.12
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.12
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.12
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.12
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.12
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.12
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.33
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.44
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.33
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.27
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.14
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.14
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.15
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.15
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.16
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.11
rrl 1476777 n.3120C>T non_coding_transcript_exon_variant 0.33
fabG1 1673222 c.-218G>A upstream_gene_variant 0.25
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103068 c.-26G>T upstream_gene_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.27
Rv1979c 2221939 p.Arg409Gln missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714465 p.Arg290Cys missense_variant 0.33
eis 2714709 c.624C>A synonymous_variant 0.5
folC 2747454 c.145C>A synonymous_variant 0.4
Rv2752c 3064548 c.1643delA frameshift_variant 0.29
Rv2752c 3065178 c.1014G>C synonymous_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474872 p.Leu289Pro missense_variant 0.5
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4040033 c.672G>A synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4248571 c.2058G>A synonymous_variant 0.17
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4328133 c.-660C>A upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0