TB-Profiler result

Run: ERR4815280
Summary

Run ID: ERR4815280

Sample name:

Date: 01-04-2023 13:46:27

Number of reads: 117424

Percentage reads mapped: 97.71

Strain:

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
lineage1.2.1 Indo-Oceanic EAI2 RD239 0.23
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
pncA 2289082 p.Pro54Thr missense_variant 0.33 pyrazinamide
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 5843 p.Lys202Glu missense_variant 0.67
gyrB 6347 p.Gln370Lys missense_variant 0.33
gyrA 7573 p.Ser91Leu missense_variant 0.33
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490960 p.Ala60Thr missense_variant 0.22
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620661 c.771C>G synonymous_variant 0.2
ccsA 620703 c.813G>C synonymous_variant 0.29
ccsA 620710 p.Val274Ile missense_variant 0.29
ccsA 620718 c.828G>C synonymous_variant 0.29
ccsA 620721 c.831G>C synonymous_variant 0.29
ccsA 620730 c.840C>T synonymous_variant 0.33
ccsA 620733 c.843G>C synonymous_variant 0.4
ccsA 620734 c.844C>A synonymous_variant 0.4
ccsA 620739 c.849A>G synonymous_variant 0.4
ccsA 620745 c.855G>C synonymous_variant 0.67
ccsA 620748 c.858T>A synonymous_variant 0.67
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406618 c.723G>A synonymous_variant 0.29
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471741 n.-105T>A upstream_gene_variant 0.67
fabG1 1674180 p.His247Gln missense_variant 1.0
rpsA 1834521 p.Ala327Val missense_variant 0.4
tlyA 1918736 p.Glu266Gly missense_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221976 p.Ala397Ser missense_variant 0.33
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2222749 p.Leu139Pro missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519035 c.921C>T synonymous_variant 1.0
eis 2714474 p.Thr287Ala missense_variant 1.0
eis 2714669 p.Gly222Arg missense_variant 1.0
eis 2715418 c.-86T>C upstream_gene_variant 0.4
Rv2752c 3066301 c.-111delC upstream_gene_variant 0.67
fbiD 3339417 c.300A>G synonymous_variant 1.0
Rv3083 3448605 c.102C>T synonymous_variant 0.33
Rv3083 3448714 p.Asp71His missense_variant 1.0
Rv3083 3448835 p.Ser111Ile missense_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fbiA 3640346 c.-196delA upstream_gene_variant 1.0
fbiA 3640648 p.Asp36Tyr missense_variant 0.5
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244420 c.1188G>C synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ubiA 4269606 p.Arg76Leu missense_variant 1.0
whiB6 4338361 p.Arg54Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0