Run ID: SRR21277752
Sample name:
Date: 04-04-2023 01:39:26
Number of reads: 10854052
Percentage reads mapped: 99.02
Strain: lineage2.2.1.1
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 | 1.0 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
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 | 575394 | p.Arg16His | missense_variant | 0.1 |
mshA | 575404 | c.57C>A | synonymous_variant | 0.15 |
mshA | 575405 | p.Arg20Ser | missense_variant | 0.38 |
mshA | 575485 | c.138G>T | synonymous_variant | 0.12 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576223 | c.876G>T | synonymous_variant | 0.11 |
mshA | 576459 | p.Ala371Asp | missense_variant | 0.25 |
mshA | 576620 | p.Ala425Ser | missense_variant | 0.16 |
ccsA | 619816 | c.-75G>T | upstream_gene_variant | 0.12 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 762724 | p.Gly973Asp | missense_variant | 0.12 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763953 | p.Arg195Leu | missense_variant | 0.11 |
rpoC | 766969 | c.3600C>A | synonymous_variant | 0.13 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 777372 | p.Pro370His | missense_variant | 0.1 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801246 | c.438C>T | synonymous_variant | 0.11 |
fbiC | 1303108 | p.Ala60Thr | missense_variant | 0.22 |
fbiC | 1303121 | p.Arg64Leu | missense_variant | 0.5 |
fbiC | 1304267 | p.Arg446Leu | missense_variant | 0.12 |
fbiC | 1304441 | p.Arg504His | missense_variant | 0.21 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
Rv1258c | 1407519 | c.-179C>T | upstream_gene_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1917977 | p.Arg13Gln | missense_variant | 0.25 |
tlyA | 1918580 | p.Arg214Leu | missense_variant | 0.25 |
tlyA | 1918591 | c.652C>T | synonymous_variant | 0.12 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155744 | p.Gly123Val | missense_variant | 0.27 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170041 | p.Thr191Met | missense_variant | 0.11 |
PPE35 | 2170104 | p.Leu170His | missense_variant | 0.15 |
PPE35 | 2170348 | p.Gln89* | stop_gained | 0.1 |
PPE35 | 2170349 | c.264C>T | synonymous_variant | 0.19 |
PPE35 | 2170356 | p.Ala86Val | missense_variant | 0.2 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518871 | p.His253Tyr | missense_variant | 1.0 |
kasA | 2519033 | p.His307Asn | missense_variant | 0.12 |
kasA | 2519161 | c.1047G>T | synonymous_variant | 0.12 |
eis | 2714846 | p.Val163Ile | missense_variant | 1.0 |
eis | 2715050 | p.Gly95Cys | missense_variant | 0.11 |
eis | 2715575 | c.-243G>T | upstream_gene_variant | 0.11 |
folC | 2746312 | p.Arg429Cys | missense_variant | 0.12 |
folC | 2746626 | p.Ala325Thr | missense_variant | 0.33 |
folC | 2746636 | c.963C>A | synonymous_variant | 0.24 |
pepQ | 2859605 | p.Gly272Trp | missense_variant | 0.33 |
pepQ | 2859606 | c.813G>A | synonymous_variant | 0.11 |
pepQ | 2859925 | p.Pro165Leu | missense_variant | 0.16 |
pepQ | 2859930 | c.489G>T | synonymous_variant | 0.2 |
pepQ | 2859941 | p.Arg160Ser | missense_variant | 0.2 |
pepQ | 2859942 | c.477C>A | synonymous_variant | 0.13 |
pepQ | 2860143 | c.276G>T | synonymous_variant | 0.12 |
pepQ | 2860147 | p.Gly91Val | missense_variant | 0.11 |
pepQ | 2860580 | c.-162G>T | upstream_gene_variant | 0.17 |
pepQ | 2860589 | c.-171G>T | upstream_gene_variant | 0.67 |
ribD | 2987353 | p.Thr172Met | missense_variant | 0.1 |
thyX | 3067428 | p.Ala173Val | missense_variant | 0.17 |
thyX | 3067543 | p.Ala135Thr | missense_variant | 0.11 |
thyX | 3067903 | p.Thr15Pro | missense_variant | 0.14 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087299 | p.Met160Ile | missense_variant | 0.22 |
fbiD | 3339746 | p.Ala210Val | missense_variant | 0.13 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474928 | p.Gly308Ser | missense_variant | 0.18 |
fprA | 3474981 | c.975C>T | synonymous_variant | 0.17 |
whiB7 | 3568800 | c.-121C>T | upstream_gene_variant | 1.0 |
Rv3236c | 3612177 | c.940C>A | synonymous_variant | 0.11 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.99 |
fbiB | 3641907 | p.Pro125Thr | missense_variant | 0.11 |
fbiB | 3642182 | c.648G>A | synonymous_variant | 0.22 |
fbiB | 3642242 | c.708C>T | synonymous_variant | 0.14 |
alr | 3841028 | c.393G>T | synonymous_variant | 0.1 |
alr | 3841034 | p.Gln129His | missense_variant | 0.17 |
clpC1 | 4038193 | p.His838Asn | missense_variant | 0.11 |
embC | 4240637 | p.His259Tyr | missense_variant | 0.12 |
embC | 4241689 | c.1827G>A | synonymous_variant | 0.11 |
embC | 4242369 | p.Arg836His | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242688 | p.Gln942His | missense_variant | 0.13 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4243502 | c.270G>A | synonymous_variant | 0.11 |
embA | 4243892 | c.660G>A | synonymous_variant | 0.11 |
embA | 4244277 | p.Pro349Ser | missense_variant | 0.22 |
embA | 4244287 | p.Gly352Val | missense_variant | 0.15 |
embA | 4244289 | p.Gly353Trp | missense_variant | 0.11 |
embA | 4244453 | c.1221G>A | synonymous_variant | 0.24 |
embB | 4246793 | p.Ala94Ser | missense_variant | 0.2 |
embB | 4247641 | c.1128G>T | synonymous_variant | 0.11 |
embB | 4247864 | p.Ala451Thr | missense_variant | 0.27 |
embB | 4247904 | p.Arg464Leu | missense_variant | 0.13 |
embB | 4248115 | c.1602C>T | synonymous_variant | 1.0 |
embB | 4248594 | p.Gly694Asp | missense_variant | 0.12 |
embB | 4248603 | p.Arg697Leu | missense_variant | 0.17 |
embB | 4248612 | p.Arg700Leu | missense_variant | 0.1 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4267911 | p.Pro309Leu | missense_variant | 0.1 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |