TB-Profiler result

Run: ERR4821848
Summary

Run ID: ERR4821848

Sample name:

Date: 01-04-2023 17:29:14

Number of reads: 1017563

Percentage reads mapped: 96.6

Strain: lineage2.2.1

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 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.54 streptomycin
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 5372 p.Leu45Val missense_variant 0.11
gyrB 6747 c.1510dupG frameshift_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8345 c.1044C>A synonymous_variant 0.13
gyrA 8570 p.Glu423Asp missense_variant 0.12
gyrA 8685 p.Ile462Val missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760005 c.201dupC frameshift_variant 0.13
rpoB 761440 p.Asp545Gly missense_variant 0.11
rpoB 762365 p.Asp853Glu missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763618 c.249C>T synonymous_variant 0.12
rpoC 764206 c.837T>C synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 776743 p.Pro580Ala missense_variant 0.12
mmpL5 776893 p.Gln530* stop_gained 0.15
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303012 c.85delG frameshift_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.5
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.5
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.5
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.67
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.67
rrs 1472543 n.699_700delCA non_coding_transcript_exon_variant 0.67
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.7
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.7
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.55
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.64
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.56
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.56
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.56
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.33
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.5
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.4
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.4
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.55
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.55
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.55
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.25
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.75
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.62
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.5
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.25
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.25
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.5
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.25
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.44
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.25
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.25
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.29
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.33
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.67
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.67
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 1.0
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.5
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102665 c.377dupT frameshift_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156469 c.-358G>T upstream_gene_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.13
PPE35 2170682 c.-70C>A upstream_gene_variant 0.11
Rv1979c 2223171 c.-7T>C upstream_gene_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288918 c.324A>G synonymous_variant 0.12
eis 2714755 p.Pro193Leu missense_variant 0.12
folC 2747427 p.Gly58Ser missense_variant 0.11
pepQ 2859430 p.Leu330Ser missense_variant 0.11
thyX 3067467 p.Ala160Val missense_variant 1.0
thyX 3068145 c.-200C>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087022 p.Ala68Val missense_variant 0.14
fprA 3473921 c.-86A>G upstream_gene_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878207 p.Gly101Ser missense_variant 0.13
panD 4043951 p.Tyr111His missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244790 p.Ala520Pro missense_variant 0.11
embA 4245044 c.1812G>T synonymous_variant 0.12
aftB 4267472 c.1365C>T synonymous_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4268942 c.891delC frameshift_variant 0.12
ubiA 4269380 p.Val152Ile missense_variant 0.11
ethA 4326195 p.Glu427* stop_gained 0.13
ethA 4327554 c.-81G>T upstream_gene_variant 0.2
ethR 4327916 p.Ala123Val missense_variant 0.1
ethR 4328191 p.Asn215Tyr missense_variant 0.11
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