Run ID: ERR2660505
Sample name:
Date: 31-03-2023 22:52:55
Number of reads: 3135687
Percentage reads mapped: 69.36
Strain: lineage1.2.2.1
Drug-resistance: Other
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 |
lineage1.2.2.1 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 0.99 |
gyrB | 6112 | p.Met291Ile | missense_variant | 0.99 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.99 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491060 | p.Met93Thr | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
ccsA | 620659 | p.Arg257Cys | missense_variant | 0.99 |
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 |
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 |
rplC | 800899 | p.Ala31Thr | missense_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471842 | n.-4T>G | upstream_gene_variant | 1.0 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472668 | n.825_829delGGGTT | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472675 | n.830_831insAGAC | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472680 | n.835C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472682 | n.837T>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472683 | n.838T>G | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474903 | n.1246T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475108 | n.1451C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476135 | n.2478T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476214 | n.2557G>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476227 | n.2570C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.2 |
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 | 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 |
thyX | 3068115 | c.-170C>T | upstream_gene_variant | 1.0 |
thyA | 3074034 | c.438T>C | 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 |
rpoA | 3878578 | c.-71C>A | upstream_gene_variant | 0.5 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240750 | c.888C>T | synonymous_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 |
ethR | 4327450 | c.-99G>A | 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 |