Run ID: ERR212112
Sample name:
Date: 31-03-2023 15:47:47
Number of reads: 1854326
Percentage reads mapped: 66.97
Strain: lineage4;lineage1.2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.06 |
lineage1 | Indo-Oceanic | EAI | RD239 | 0.95 |
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 0.94 |
lineage1.2.2.1 | Indo-Oceanic | NA | RD239 | 0.97 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 0.96 |
gyrB | 6112 | p.Met291Ile | missense_variant | 0.98 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.96 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.98 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491060 | p.Met93Thr | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.96 |
ccsA | 620659 | p.Arg257Cys | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.88 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.97 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.97 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.98 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800899 | p.Ala31Thr | missense_variant | 0.96 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.95 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471842 | n.-4T>G | upstream_gene_variant | 0.97 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472129 | n.284G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472151 | n.306C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472697 | n.852T>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472700 | n.855C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472803 | n.958T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472969 | n.1124A>G | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472975 | n.1130T>A | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472982 | n.1137G>A | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.51 |
rrs | 1473001 | n.1156G>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473002 | n.1157G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473008 | n.1163C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473009 | n.1164T>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473020 | n.1175T>C | non_coding_transcript_exon_variant | 0.45 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473147 | n.1302G>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473150 | n.1305T>G | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1473164 | n.1319C>G | non_coding_transcript_exon_variant | 0.31 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473262 | n.1417T>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475783 | n.2126T>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475866 | n.2209T>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475869 | n.2212C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476251 | n.2594T>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476297 | n.2640C>A | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476353 | n.2696G>A | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476359 | n.2702C>T | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476513 | n.2856G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476565 | n.2908G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476566 | n.2909A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476577 | n.2920T>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476578 | n.2921C>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476592 | n.2935G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476605 | n.2948C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476608 | n.2951C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476614 | n.2957A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476629 | n.2972C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476637 | n.2980C>A | non_coding_transcript_exon_variant | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.97 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.89 |
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 | 0.91 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.93 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.22 |
Rv2752c | 3065782 | p.Gly137Val | missense_variant | 0.97 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.32 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.93 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 0.98 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.94 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.22 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.24 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 0.89 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.94 |
embC | 4240750 | c.888C>T | synonymous_variant | 0.96 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.29 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 0.94 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.94 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.95 |
ethA | 4326439 | p.Asn345Lys | missense_variant | 0.97 |
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 | 0.93 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.96 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.93 |