Run ID: SRR10315705
Sample name:
Date: 02-04-2023 17:16:04
Number of reads: 4778103
Percentage reads mapped: 97.68
Strain: lineage4.4.1.1.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 0.98 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 0.99 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 0.99 |
lineage4.4.1.1.1 | Euro-American | S;Orphans | None | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761161 | p.Leu452Pro | missense_variant | 0.98 | rifampicin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.17 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 0.99 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.31 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472673 | n.828T>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472687 | n.843dupT | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.1 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.98 |
ndh | 2102990 | p.Val18Ala | missense_variant | 0.96 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.99 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.39 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 0.99 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.29 |
ethR | 4327675 | p.Ala43Thr | missense_variant | 0.99 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408103 | p.Gly34Trp | missense_variant | 0.99 |