Run ID: ERR1750934
Sample name:
Date: 31-03-2023 15:00:44
Number of reads: 1005414
Percentage reads mapped: 95.75
Strain: lineage2.2.1
Drug-resistance: Sensitive
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 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5152 | c.-88C>T | upstream_gene_variant | 0.22 |
gyrB | 5212 | c.-28C>T | upstream_gene_variant | 0.2 |
gyrB | 5409 | p.Ala57Val | missense_variant | 0.25 |
gyrB | 6199 | p.Phe320Leu | missense_variant | 0.22 |
gyrB | 7030 | c.1794delG | frameshift_variant | 0.18 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7525 | p.Arg75Leu | missense_variant | 0.2 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7974 | p.Gly225Cys | missense_variant | 0.33 |
gyrA | 8882 | c.1581G>A | synonymous_variant | 0.4 |
gyrA | 9147 | p.Gly616Ser | missense_variant | 0.29 |
gyrA | 9162 | p.Pro621Ser | missense_variant | 0.2 |
gyrA | 9272 | p.Asp657Glu | missense_variant | 0.18 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9565 | p.Tyr755Phe | missense_variant | 0.17 |
gyrA | 9661 | p.Ala787Val | missense_variant | 0.18 |
fgd1 | 491014 | p.Thr78Pro | missense_variant | 0.38 |
fgd1 | 491328 | c.546C>G | synonymous_variant | 1.0 |
fgd1 | 491330 | p.Lys183Met | missense_variant | 1.0 |
fgd1 | 491651 | p.Pro290His | missense_variant | 0.5 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576750 | p.Lys468Thr | missense_variant | 0.18 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.4 |
rpoB | 761005 | p.Thr400Ile | missense_variant | 0.5 |
rpoB | 761016 | p.Glu404* | stop_gained | 0.4 |
rpoB | 762148 | p.Arg781Leu | missense_variant | 0.4 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763542 | p.Trp58* | stop_gained | 0.5 |
rpoC | 764333 | p.Pro322Ser | missense_variant | 0.4 |
rpoC | 764893 | c.1524T>A | synonymous_variant | 0.5 |
mmpL5 | 775592 | c.2889G>A | synonymous_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 |
mmpL5 | 776344 | p.Gly713Trp | missense_variant | 0.25 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800820 | p.Lys4Asn | missense_variant | 0.4 |
rplC | 801025 | p.Ala73Thr | missense_variant | 0.22 |
rplC | 801272 | p.Ala155Gly | missense_variant | 0.33 |
fbiC | 1303121 | p.Arg64Leu | missense_variant | 0.13 |
fbiC | 1303290 | p.Ser120Arg | missense_variant | 0.29 |
fbiC | 1304953 | p.Glu675* | stop_gained | 0.22 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
embR | 1416271 | c.1077C>T | synonymous_variant | 0.33 |
embR | 1417173 | p.Leu59Phe | missense_variant | 0.29 |
embR | 1417181 | p.Ile56Asn | missense_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474682 | n.1025A>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474683 | n.1026C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475029 | n.1372T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476131 | n.2474C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476160 | n.2503T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476165 | n.2508T>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476236 | n.2579G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476297 | n.2640C>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476298 | n.2641C>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476300 | n.2643G>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476309 | n.2652G>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476337 | n.2680C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476631 | n.2974G>T | non_coding_transcript_exon_variant | 0.5 |
fabG1 | 1673298 | c.-142A>T | upstream_gene_variant | 0.29 |
fabG1 | 1673347 | c.-93C>A | upstream_gene_variant | 0.33 |
fabG1 | 1673417 | c.-23C>A | upstream_gene_variant | 0.29 |
inhA | 1674802 | p.Ala201Ser | missense_variant | 0.18 |
rpsA | 1834665 | p.Pro375Gln | missense_variant | 0.4 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102540 | p.Ala168Gly | missense_variant | 0.31 |
katG | 2154612 | c.1500G>A | synonymous_variant | 0.4 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2222493 | c.672C>A | synonymous_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288904 | p.Gly113Asp | missense_variant | 0.33 |
kasA | 2519330 | p.Gly406Ser | missense_variant | 0.18 |
eis | 2714566 | p.Leu256Pro | missense_variant | 0.67 |
eis | 2714891 | p.Arg148Cys | missense_variant | 0.2 |
eis | 2714955 | p.Tyr126* | stop_gained | 0.15 |
folC | 2746505 | p.Thr365Met | missense_variant | 0.17 |
pepQ | 2859333 | p.Leu362Phe | missense_variant | 0.5 |
ribD | 2986992 | p.Gly52Cys | missense_variant | 0.33 |
Rv2752c | 3066195 | c.-5delC | upstream_gene_variant | 0.33 |
thyA | 3073886 | p.Val196Phe | missense_variant | 0.33 |
ald | 3086622 | c.-198C>T | upstream_gene_variant | 0.29 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086982 | p.Ala55Thr | missense_variant | 0.33 |
ald | 3087335 | c.516G>A | synonymous_variant | 0.2 |
fbiD | 3338949 | c.-169G>T | upstream_gene_variant | 0.5 |
fbiD | 3339402 | c.285C>T | synonymous_variant | 0.18 |
Rv3083 | 3449324 | p.Arg274Leu | missense_variant | 0.33 |
Rv3083 | 3449396 | p.Cys298Tyr | missense_variant | 0.29 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474051 | c.45G>T | synonymous_variant | 0.22 |
fprA | 3474814 | p.Arg270Trp | missense_variant | 0.22 |
fprA | 3474914 | p.Ala303Val | missense_variant | 0.14 |
fprA | 3475233 | p.Trp409Cys | missense_variant | 0.18 |
fprA | 3475288 | p.Ala428Thr | missense_variant | 0.17 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3642844 | c.1313delC | frameshift_variant | 0.18 |
alr | 3840550 | p.Glu291Lys | missense_variant | 0.17 |
rpoA | 3878096 | p.Leu138Phe | missense_variant | 0.5 |
clpC1 | 4039365 | p.Ala447Asp | missense_variant | 0.25 |
clpC1 | 4040756 | c.-52T>A | upstream_gene_variant | 0.29 |
clpC1 | 4040791 | c.-90_-88delGGA | upstream_gene_variant | 0.22 |
embC | 4241785 | p.Trp641* | stop_gained | 0.5 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4243128 | p.Ala1089Val | missense_variant | 0.25 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4246422 | p.Val1064Met | missense_variant | 0.18 |
aftB | 4267003 | p.Arg612Trp | missense_variant | 0.33 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4267970 | c.867C>T | synonymous_variant | 0.25 |
aftB | 4268006 | c.831A>T | synonymous_variant | 0.25 |
aftB | 4268831 | c.6C>A | synonymous_variant | 0.13 |
ubiA | 4269121 | p.Phe238Tyr | missense_variant | 0.33 |
ubiA | 4269140 | p.Cys232Ser | missense_variant | 0.4 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407720 | c.483C>A | synonymous_variant | 0.22 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |
gid | 4408341 | c.-139G>A | upstream_gene_variant | 0.25 |