Run ID: ERR4828559
Sample name:
Date: 01-04-2023 18:57:09
Number of reads: 1576469
Percentage reads mapped: 69.8
Strain: lineage1.1.1.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 0.98 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 0.99 |
lineage1.1.1 | Indo-Oceanic | EAI4;EAI5 | RD239 | 0.99 |
lineage1.1.1.1 | Indo-Oceanic | EAI4;ZERO | RD239 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gid | 4407965 | p.Ala80Pro | missense_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
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 | 0.98 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490972 | p.Arg64Ser | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | 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 | 765171 | p.Pro601Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472678 | n.833T>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472682 | n.839_843delGGGAT | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472697 | n.852T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472700 | n.855C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474709 | n.1052G>T | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.11 |
rpsA | 1834319 | p.Val260Ile | missense_variant | 1.0 |
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 | 2167983 | p.Gly877Asp | missense_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
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 | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
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 |
alr | 3840628 | p.Ala265Thr | missense_variant | 1.0 |
rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.98 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4244096 | c.864C>T | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4247671 | c.1158G>A | synonymous_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
whiB6 | 4338242 | p.Gln94Glu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |