Run ID: ERR4831898
Sample name:
Date: 01-04-2023 21:11:43
Number of reads: 830732
Percentage reads mapped: 90.64
Strain: lineage2.2.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.95 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288835 | p.Asp136Gly | missense_variant | 0.27 | pyrazinamide |
folC | 2747151 | p.Ser150Gly | missense_variant | 1.0 | para-aminosalicylic_acid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5730 | p.Thr164Ser | missense_variant | 0.12 |
gyrB | 6195 | p.Gly319Asp | 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 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764925 | p.Gly519Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800728 | c.-81C>G | upstream_gene_variant | 0.13 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472812 | n.967A>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474673 | n.1016T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474676 | n.1019T>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474677 | n.1020A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474710 | n.1053T>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474711 | n.1054G>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474712 | n.1055G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474713 | n.1056T>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474753 | n.1096A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.67 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103094 | c.-52A>G | upstream_gene_variant | 0.11 |
ndh | 2103225 | c.-183A>C | upstream_gene_variant | 0.25 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168662 | p.Ile651Val | missense_variant | 0.1 |
PPE35 | 2168912 | c.1701G>A | synonymous_variant | 0.29 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518147 | c.33C>T | synonymous_variant | 0.27 |
ahpC | 2726350 | p.Trp53Leu | missense_variant | 0.18 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
Rv3236c | 3612856 | c.261C>A | synonymous_variant | 0.12 |
alr | 3841612 | c.-193_-192insC | upstream_gene_variant | 1.0 |
rpoA | 3877923 | c.585C>T | synonymous_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ubiA | 4269296 | p.Met180Val | missense_variant | 1.0 |
ethA | 4326337 | p.Asn379Lys | missense_variant | 1.0 |
ethA | 4327391 | p.Pro28Gln | missense_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407866 | p.Glu113Gln | missense_variant | 0.1 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |