Run ID: SRR13861344
Sample name:
Date: 03-04-2023 09:29:33
Number of reads: 249693
Percentage reads mapped: 6.25
Strain: lineage4.9
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761135 | p.Leu443Phe | missense_variant | 0.22 | rifampicin |
pncA | 2288784 | p.Thr153Asn | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 9494 | p.Tyr731* | stop_gained | 1.0 |
fgd1 | 491771 | p.Pro330Leu | missense_variant | 1.0 |
ccsA | 620321 | p.Pro144Arg | missense_variant | 0.33 |
rpoB | 761150 | c.1344A>C | synonymous_variant | 0.22 |
rpoB | 761151 | p.Leu449Val | missense_variant | 0.22 |
rpoB | 761156 | c.1350G>C | synonymous_variant | 0.18 |
rpoB | 761162 | c.1356G>C | synonymous_variant | 0.18 |
rpoB | 761165 | c.1359G>C | synonymous_variant | 0.18 |
rpoB | 761168 | c.1362C>G | synonymous_variant | 0.18 |
rpoB | 761178 | p.Ser458Thr | missense_variant | 0.2 |
rpoB | 761192 | c.1386C>G | synonymous_variant | 0.18 |
rpoB | 761195 | c.1389G>C | synonymous_variant | 0.18 |
rpoB | 761196 | p.Leu464Phe | missense_variant | 0.18 |
rpoB | 761204 | c.1398C>T | synonymous_variant | 0.2 |
rpoB | 761213 | c.1407G>A | synonymous_variant | 0.18 |
rpoB | 761220 | p.Ser472Thr | missense_variant | 0.2 |
rpoB | 761234 | c.1428G>C | synonymous_variant | 0.25 |
rpoB | 761235 | p.Met477Val | missense_variant | 0.25 |
rpoB | 761258 | c.1452G>A | synonymous_variant | 0.22 |
rpoB | 762878 | p.Ile1024Met | missense_variant | 0.33 |
rpoB | 762879 | p.Met1025Leu | missense_variant | 0.33 |
rpoB | 762888 | p.His1028Asn | missense_variant | 0.38 |
rpoB | 762911 | p.Ile1035Met | missense_variant | 0.5 |
rpoC | 762920 | c.-450C>T | upstream_gene_variant | 0.43 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.43 |
rpoB | 762930 | p.Pro1042Ser | missense_variant | 0.43 |
rpoB | 762937 | p.Ser1044Cys | missense_variant | 0.29 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.33 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.43 |
rpoB | 762948 | p.Gln1048Glu | missense_variant | 0.5 |
rpoC | 762962 | c.-408C>T | upstream_gene_variant | 0.43 |
rpoC | 762971 | c.-399G>A | upstream_gene_variant | 0.43 |
rpoC | 762983 | c.-387C>T | upstream_gene_variant | 0.43 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.43 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.43 |
rpoC | 767026 | c.3657G>C | synonymous_variant | 1.0 |
fbiC | 1303155 | c.225G>C | synonymous_variant | 1.0 |
fbiC | 1304225 | p.Gly432Asp | missense_variant | 1.0 |
fbiC | 1305046 | p.Ser706Pro | missense_variant | 1.0 |
Rv1258c | 1406433 | c.907delA | frameshift_variant | 1.0 |
embR | 1416546 | p.Thr268Ser | missense_variant | 1.0 |
rrs | 1472936 | n.1091C>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472963 | n.1118G>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472971 | n.1126G>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473044 | n.1199C>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473051 | n.1206T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1473053 | n.1208T>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474652 | n.995T>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.31 |
ndh | 2102315 | p.Ile243Thr | missense_variant | 1.0 |
kasA | 2518563 | p.Ala150Gly | missense_variant | 1.0 |
kasA | 2519015 | p.Ser301Ala | missense_variant | 1.0 |
Rv3236c | 3612913 | p.Leu68Phe | missense_variant | 1.0 |
ethA | 4326245 | p.Asp410Ala | missense_variant | 1.0 |
ethR | 4327132 | c.-417G>A | upstream_gene_variant | 1.0 |
ethA | 4327893 | c.-420C>A | upstream_gene_variant | 1.0 |
gid | 4408070 | p.Trp45Arg | missense_variant | 1.0 |