Run ID: ERR2515309
Sample name:
Date: 31-03-2023 20:51:58
Number of reads: 510000
Percentage reads mapped: 99.63
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 |
---|---|---|---|---|
gyrA | 6319 | c.-983G>A | upstream_gene_variant | 0.11 |
gyrA | 7354 | p.Val18Asp | missense_variant | 0.17 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.94 |
fgd1 | 490603 | c.-180G>T | upstream_gene_variant | 0.11 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575323 | c.-25G>C | upstream_gene_variant | 0.15 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620083 | p.Ala65Ser | missense_variant | 0.17 |
ccsA | 620182 | p.Arg98Cys | missense_variant | 0.12 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
ccsA | 620853 | c.963G>C | synonymous_variant | 0.14 |
rpoB | 760411 | p.Arg202His | missense_variant | 0.18 |
rpoB | 760944 | p.Gln380Lys | missense_variant | 0.15 |
rpoB | 760963 | p.Gly386Val | missense_variant | 0.15 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764051 | p.Lys228* | stop_gained | 0.13 |
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 | 777814 | p.Tyr223His | missense_variant | 0.13 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303267 | p.Lys113Glu | missense_variant | 0.15 |
fbiC | 1303275 | c.345C>A | synonymous_variant | 0.17 |
Rv1258c | 1406399 | c.942C>A | synonymous_variant | 0.11 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
embR | 1417350 | c.-3G>A | upstream_gene_variant | 0.11 |
atpE | 1460920 | c.-125T>C | upstream_gene_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473777 | n.120T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474036 | n.379G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474141 | n.484G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474217 | n.560A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475435 | n.1778G>T | non_coding_transcript_exon_variant | 0.13 |
inhA | 1674162 | c.-40C>T | upstream_gene_variant | 0.17 |
inhA | 1674225 | c.24A>G | synonymous_variant | 0.13 |
inhA | 1674879 | c.678T>G | synonymous_variant | 0.12 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
rpsA | 1834759 | c.1218A>G | synonymous_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918151 | p.Val71Ala | missense_variant | 0.14 |
ndh | 2102617 | c.426C>T | synonymous_variant | 0.12 |
ndh | 2103226 | c.-184C>G | upstream_gene_variant | 1.0 |
katG | 2154394 | p.Asp573Gly | missense_variant | 0.12 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168423 | c.2190G>T | synonymous_variant | 0.18 |
PPE35 | 2169930 | p.Gly228Asp | missense_variant | 0.12 |
PPE35 | 2170114 | p.Ala167Ser | missense_variant | 0.15 |
PPE35 | 2170321 | p.Glu98Lys | missense_variant | 0.25 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2747184 | p.Gln139Lys | missense_variant | 0.22 |
pepQ | 2859703 | p.Leu239Ser | missense_variant | 0.14 |
ribD | 2987442 | p.Phe202Leu | missense_variant | 0.14 |
Rv2752c | 3064591 | p.Arg534His | missense_variant | 0.13 |
ald | 3086739 | c.-81G>A | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087501 | p.Ala228Pro | missense_variant | 0.11 |
fbiD | 3339012 | c.-106A>G | upstream_gene_variant | 0.17 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiA | 3640733 | p.Thr64Ile | missense_variant | 0.14 |
fbiB | 3642444 | p.Ala304Thr | missense_variant | 0.18 |
alr | 3840209 | c.1211delA | frameshift_variant | 0.17 |
rpoA | 3878462 | p.Asp16Asn | missense_variant | 0.29 |
ddn | 3986838 | c.-6A>G | upstream_gene_variant | 0.11 |
ddn | 3987111 | c.269delT | frameshift_variant | 0.18 |
clpC1 | 4039862 | p.Asp281Glu | missense_variant | 0.11 |
clpC1 | 4040206 | p.Thr167Ala | missense_variant | 0.13 |
panD | 4044252 | c.30C>T | synonymous_variant | 0.12 |
embC | 4241553 | p.Pro564Leu | missense_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4248151 | c.1638C>G | synonymous_variant | 0.13 |
embB | 4248897 | p.Glu795Gly | missense_variant | 0.2 |
aftB | 4267458 | p.Trp460Leu | missense_variant | 0.29 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4268694 | p.Val48Ala | missense_variant | 0.25 |
ubiA | 4269538 | p.Glu99Ala | missense_variant | 0.2 |
ethA | 4326857 | p.Gln206Arg | missense_variant | 0.1 |
ethR | 4327625 | p.Glu26Gly | missense_variant | 0.11 |
ethR | 4327661 | p.Glu38Gly | missense_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407882 | c.321T>C | synonymous_variant | 0.14 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |