Run ID: SRR1172710
Sample name:
Date: 03-04-2023 03:08:25
Number of reads: 1399987
Percentage reads mapped: 59.25
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 | 5151 | c.-89C>A | upstream_gene_variant | 1.0 |
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 | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 760735 | p.Val310Gly | missense_variant | 0.97 |
rpoC | 762899 | c.-471G>C | upstream_gene_variant | 0.12 |
rpoB | 762911 | p.Ile1035Met | missense_variant | 0.11 |
rpoC | 762965 | c.-405T>C | upstream_gene_variant | 0.11 |
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 | 764632 | c.1263T>C | synonymous_variant | 0.15 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.2 |
rpoC | 764665 | c.1296C>G | synonymous_variant | 0.16 |
rpoC | 764668 | c.1299C>T | synonymous_variant | 0.16 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.12 |
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 | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472243 | n.398G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472256 | n.411T>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472707 | n.862A>G | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472714 | n.869A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472716 | n.871C>G | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472803 | n.958T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472887 | n.1042G>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472982 | n.1137G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472996 | n.1151T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473139 | n.1294T>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1473150 | n.1305T>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473194 | n.1349A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476669 | n.3012C>T | non_coding_transcript_exon_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 | 2168742 | p.Gly624Asp | missense_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.26 |
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 |
ahpC | 2726193 | c.1A>C | initiator_codon_variant | 1.0 |
ahpC | 2726427 | p.Asp79Asn | missense_variant | 1.0 |
pepQ | 2860150 | p.Ala90Val | missense_variant | 1.0 |
Rv2752c | 3064889 | p.Lys435Glu | missense_variant | 1.0 |
thyX | 3067244 | c.702C>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 | 0.97 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.88 |
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 | 4245297 | p.Pro689Ser | missense_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4268171 | c.666G>A | synonymous_variant | 1.0 |
aftB | 4268735 | c.102C>G | synonymous_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 |
gid | 4407973 | p.Val77Ala | missense_variant | 0.36 |