Run ID: SRR11972171
Sample name:
Date: 03-04-2023 05:30:59
Number of reads: 509505
Percentage reads mapped: 97.29
Strain: lineage2.2.2
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.2 | East-Asian (Beijing) | Beijing-RD105/RD207 | RD105;RD207 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761166 | p.Pro454Ser | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 6490 | c.-812T>A | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7546 | p.Gly82Val | missense_variant | 0.13 |
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 |
ccsA | 620537 | p.Val216Gly | missense_variant | 0.29 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.21 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.25 |
rpoB | 762399 | p.Val865Met | missense_variant | 0.22 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765890 | p.Arg841Cys | missense_variant | 0.29 |
rpoC | 767067 | p.Leu1233Gln | missense_variant | 0.4 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777191 | c.1290C>A | synonymous_variant | 0.15 |
mmpL5 | 777196 | p.Glu429Gln | missense_variant | 0.15 |
mmpL5 | 777226 | p.Asn419Asp | missense_variant | 0.15 |
mmpL5 | 777227 | c.1254C>T | synonymous_variant | 0.15 |
mmpL5 | 777612 | p.Gly290Val | missense_variant | 0.2 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781832 | c.273T>C | synonymous_variant | 0.12 |
fbiC | 1302954 | c.25delT | frameshift_variant | 0.13 |
fbiC | 1303691 | p.Pro254Gln | missense_variant | 0.18 |
Rv1258c | 1406087 | c.1254T>A | synonymous_variant | 0.18 |
Rv1258c | 1406145 | p.Ala399Val | missense_variant | 1.0 |
atpE | 1461163 | p.Ala40Asp | missense_variant | 0.14 |
atpE | 1461192 | p.Phe50Leu | missense_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472374 | n.529T>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472389 | n.544G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472390 | n.545T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472391 | n.546C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474711 | n.1054G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475023 | n.1366G>A | non_coding_transcript_exon_variant | 0.15 |
fabG1 | 1673324 | c.-116G>T | upstream_gene_variant | 0.12 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.42 |
rpsA | 1834174 | c.633C>T | synonymous_variant | 0.2 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101663 | c.1380G>A | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.14 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.21 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168140 | p.Ala825Thr | missense_variant | 0.15 |
PPE35 | 2168143 | p.Phe824Leu | missense_variant | 0.15 |
PPE35 | 2168150 | c.2463T>C | synonymous_variant | 0.12 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.13 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.14 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.14 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.15 |
PPE35 | 2169988 | p.Leu209Met | missense_variant | 0.12 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.32 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.31 |
PPE35 | 2170406 | c.207A>G | synonymous_variant | 0.12 |
Rv1979c | 2222037 | c.1128C>T | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289986 | c.-745T>A | upstream_gene_variant | 0.33 |
kasA | 2518489 | p.Ser125Arg | missense_variant | 0.18 |
kasA | 2518809 | p.Lys232Arg | missense_variant | 0.2 |
ahpC | 2726557 | p.Ala122Val | missense_variant | 0.17 |
Rv2752c | 3067059 | c.-868G>A | upstream_gene_variant | 0.17 |
thyA | 3074648 | c.-177T>G | upstream_gene_variant | 0.2 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474568 | p.Pro188Thr | missense_variant | 0.33 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
alr | 3840207 | p.Ala405Asp | missense_variant | 0.18 |
alr | 3840423 | p.Arg333Lys | missense_variant | 0.33 |
rpoA | 3877809 | c.699G>A | synonymous_variant | 0.14 |
rpoA | 3877951 | p.Arg186His | missense_variant | 0.18 |
clpC1 | 4039161 | p.His515Gly | missense_variant | 0.13 |
clpC1 | 4039169 | p.Glu512Asp | missense_variant | 0.14 |
clpC1 | 4040057 | c.648C>T | synonymous_variant | 0.22 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4245482 | c.2250G>A | synonymous_variant | 0.29 |
embB | 4248196 | p.Lys561Asn | missense_variant | 0.15 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4268797 | p.Ala14Ser | missense_variant | 0.12 |
ethA | 4326136 | c.1338G>T | synonymous_variant | 0.15 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338683 | c.-162G>A | upstream_gene_variant | 0.15 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |