Run ID: SRR6797420
Sample name:
Date: 04-04-2023 16:09:16
Number of reads: 1183807
Percentage reads mapped: 99.17
Strain: lineage1.2.2.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 1.0 |
lineage1.2.2.2 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 1.0 |
gyrB | 5421 | p.Tyr61Phe | missense_variant | 0.12 |
gyrB | 5530 | c.291C>T | synonymous_variant | 1.0 |
gyrB | 5795 | p.Asp186Tyr | missense_variant | 0.13 |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 8582 | c.1281C>A | synonymous_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9798 | p.Ala833Thr | missense_variant | 0.15 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
ccsA | 620586 | c.696C>T | synonymous_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
rpoC | 764045 | p.Phe226Ile | missense_variant | 0.18 |
rpoC | 765889 | c.2520C>T | synonymous_variant | 1.0 |
rpoC | 766988 | c.3619C>T | synonymous_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777155 | c.1326G>C | synonymous_variant | 1.0 |
mmpL5 | 778798 | c.-318C>A | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781911 | p.Gly118Cys | missense_variant | 0.14 |
rplC | 800749 | c.-60T>C | upstream_gene_variant | 0.1 |
fbiC | 1302948 | c.18T>G | synonymous_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472050 | n.205G>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472194 | n.349G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474498 | n.841G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474567 | n.910A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474725 | n.1068C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476076 | n.2419A>G | non_coding_transcript_exon_variant | 0.12 |
rpsA | 1834408 | c.867C>T | synonymous_variant | 0.12 |
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 |
PPE35 | 2168742 | p.Gly624Asp | missense_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2222609 | p.Thr186Ala | missense_variant | 0.17 |
Rv1979c | 2223099 | c.66C>T | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064889 | p.Lys435Glu | missense_variant | 1.0 |
Rv2752c | 3066103 | p.Asn30Ser | missense_variant | 0.96 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087542 | c.723G>T | synonymous_variant | 0.94 |
Rv3083 | 3448422 | c.-82T>C | upstream_gene_variant | 0.12 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
whiB7 | 3568436 | p.Pro82Ala | missense_variant | 1.0 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.83 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326439 | p.Asn345Lys | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338635 | c.-114A>C | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |