Run ID: ERR4820264
Sample name:
Date: 01-04-2023 16:35:02
Number of reads: 2194926
Percentage reads mapped: 61.48
Strain: lineage1.1.2
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 1.0 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6124 | c.885C>T | synonymous_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 | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491494 | p.Asp238Asn | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 760490 | c.684C>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 | 765171 | p.Pro601Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776395 | p.Phe696Leu | missense_variant | 1.0 |
mmpR5 | 779474 | p.Gly162Glu | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303442 | p.Leu171Trp | missense_variant | 1.0 |
fbiC | 1304855 | p.Val642Ala | missense_variant | 0.43 |
fbiC | 1304860 | p.Lys644Glu | missense_variant | 0.18 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472160 | n.315C>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472181 | n.336G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472243 | n.398G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472549 | n.704G>A | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472573 | n.728C>G | non_coding_transcript_exon_variant | 0.85 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472597 | n.752G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472612 | n.767G>T | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472697 | n.852T>G | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472715 | n.870C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.95 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.95 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.93 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.92 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472806 | n.961A>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472896 | n.1051T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.46 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.57 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.57 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.58 |
rrs | 1473255 | n.1410A>G | non_coding_transcript_exon_variant | 0.56 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1473260 | n.1415G>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473282 | n.1437C>G | non_coding_transcript_exon_variant | 0.37 |
rrl | 1473987 | n.330G>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474124 | n.467G>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474228 | n.571T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474236 | n.579G>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474249 | n.592G>C | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474253 | n.596A>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474276 | n.619C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476009 | n.2352G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101850 | p.Val398Ala | missense_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155402 | p.Gly237Ala | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.14 |
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 |
Rv3083 | 3448768 | p.Ala89Thr | 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 |
fbiA | 3640852 | p.Leu104Phe | missense_variant | 1.0 |
fbiB | 3641882 | c.348C>A | synonymous_variant | 1.0 |
rpoA | 3878268 | c.240C>T | synonymous_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
clpC1 | 4040814 | c.-110G>A | upstream_gene_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 | 4243848 | p.Val206Met | missense_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 |
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 |