Run ID: SRR6045448
Sample name:
Date: 04-04-2023 11:59:28
Number of reads: 1857971
Percentage reads mapped: 75.93
Strain: lineage3;lineage2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 0.61 |
lineage2 | East-Asian | Beijing | RD105 | 0.37 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.39 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.39 |
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 | 8405 | p.His368Gln | missense_variant | 0.67 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.97 |
mshA | 575907 | p.Ala187Val | missense_variant | 0.51 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.51 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 0.68 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 0.58 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766645 | p.Glu1092Asp | missense_variant | 0.46 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775675 | p.Trp936Arg | missense_variant | 0.46 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.23 |
mmpS5 | 778588 | p.Gln106His | missense_variant | 0.12 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.36 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305215 | p.Ser762Asn | missense_variant | 0.66 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.5 |
embR | 1416934 | c.414G>A | synonymous_variant | 0.73 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472627 | n.782G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474134 | n.477G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474254 | n.597C>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474459 | n.802C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475071 | n.1414G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475588 | n.1931G>T | non_coding_transcript_exon_variant | 0.15 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.34 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 0.66 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 0.59 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 0.61 |
folC | 2746268 | p.Thr444Ile | missense_variant | 0.48 |
pepQ | 2859624 | c.795G>A | synonymous_variant | 0.64 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.39 |
fbiB | 3640671 | c.-864T>C | upstream_gene_variant | 0.55 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.56 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.39 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.35 |
aftB | 4268611 | c.225delG | frameshift_variant | 0.15 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.4 |