Run ID: ERR1194811
Sample name:
Date: 31-03-2023 12:34:27
Number of reads: 683873
Percentage reads mapped: 99.13
Strain: lineage2.2.1
Drug-resistance: Other
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 |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5990 | p.Phe251Leu | missense_variant | 0.29 |
gyrB | 7067 | p.Tyr610Asp | missense_variant | 0.18 |
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 | 490884 | c.102C>T | synonymous_variant | 0.14 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576231 | p.Ile295Ser | missense_variant | 0.2 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 761609 | p.Met601Ile | missense_variant | 0.22 |
rpoB | 762577 | p.Gln924Leu | missense_variant | 0.29 |
rpoB | 762628 | p.Asp941Ala | missense_variant | 0.38 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763187 | c.-183C>T | upstream_gene_variant | 0.33 |
rpoB | 763295 | p.Asn1163Lys | missense_variant | 0.15 |
rpoC | 763383 | p.Asn5Ile | missense_variant | 0.18 |
rpoC | 763608 | p.Val80Gly | missense_variant | 0.29 |
rpoC | 766100 | p.Ile911Leu | missense_variant | 0.18 |
rpoC | 766643 | p.Glu1092Tyr | missense_variant | 0.29 |
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 | 776546 | p.Met645Ile | missense_variant | 0.17 |
mmpL5 | 779007 | c.-527C>G | upstream_gene_variant | 0.2 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303699 | p.Thr257Ser | missense_variant | 0.33 |
fbiC | 1304067 | c.1137G>T | synonymous_variant | 0.29 |
fbiC | 1305096 | c.2166T>C | synonymous_variant | 0.11 |
Rv1258c | 1406106 | p.Asp412Ala | missense_variant | 0.18 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
Rv1258c | 1407039 | p.Val101Gly | missense_variant | 0.33 |
embR | 1416482 | p.Val289Glu | missense_variant | 0.12 |
atpE | 1460880 | c.-165A>G | upstream_gene_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473396 | n.-262A>T | upstream_gene_variant | 0.91 |
inhA | 1674763 | p.Leu188Val | missense_variant | 0.2 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102045 | c.997delG | frameshift_variant | 0.15 |
katG | 2154639 | c.1473C>T | synonymous_variant | 0.14 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167745 | p.Thr956Arg | missense_variant | 0.2 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.18 |
PPE35 | 2167847 | c.2766A>T | synonymous_variant | 0.13 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168476 | p.Pro713Thr | missense_variant | 0.33 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.29 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2859430 | p.Leu330* | stop_gained | 0.33 |
pepQ | 2859925 | p.Pro165Leu | missense_variant | 0.18 |
ribD | 2986837 | c.-2T>A | upstream_gene_variant | 0.22 |
Rv2752c | 3065500 | p.Gly231Val | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448947 | c.444T>A | synonymous_variant | 0.4 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612510 | p.Gly203Cys | missense_variant | 0.4 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
Rv3236c | 3612860 | p.Leu86Gln | missense_variant | 0.33 |
Rv3236c | 3613010 | p.Tyr36Phe | missense_variant | 0.25 |
fbiB | 3640827 | c.-708T>C | upstream_gene_variant | 0.11 |
alr | 3840873 | p.Met183Lys | missense_variant | 0.25 |
alr | 3841503 | c.-83G>A | upstream_gene_variant | 0.15 |
rpoA | 3878490 | c.18C>G | synonymous_variant | 0.33 |
clpC1 | 4039829 | p.Leu292Ile | missense_variant | 0.29 |
embC | 4240335 | p.Thr158Ile | missense_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4243944 | p.Thr238Pro | missense_variant | 0.18 |
embA | 4244482 | p.Leu417Arg | missense_variant | 0.2 |
embA | 4244610 | p.Ala460Ser | missense_variant | 0.22 |
embA | 4245056 | c.1824C>A | synonymous_variant | 0.15 |
embB | 4246643 | p.Thr44Pro | missense_variant | 0.33 |
aftB | 4267224 | p.Ile538Ser | missense_variant | 0.2 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
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 |
gid | 4408050 | p.Asn51Lys | missense_variant | 0.12 |