TB-Profiler result

Run: SRR8692824
Summary

Run ID: SRR8692824

Sample name:

Date: 13-08-2023 20:58:22

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.9

Drug-resistance: Other

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
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 0.99
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rplC 801268 p.Cys154Arg missense_variant 0.97 linezolid
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 6019 p.Phe260Leu missense_variant 0.15
gyrA 8078 c.777A>C synonymous_variant 0.12
gyrA 8090 c.789C>G synonymous_variant 0.25
gyrA 8096 c.795T>G synonymous_variant 0.25
gyrA 8099 c.798T>C synonymous_variant 0.25
gyrA 8106 p.Leu269Ile missense_variant 0.22
gyrA 8129 c.828T>C synonymous_variant 0.24
gyrA 8135 c.834C>G synonymous_variant 0.22
gyrA 8156 c.855T>C synonymous_variant 0.21
gyrA 8168 c.867A>G synonymous_variant 0.2
gyrA 8177 c.876A>C synonymous_variant 0.2
gyrA 8189 c.888G>C synonymous_variant 0.19
gyrA 8190 p.Ala297Thr missense_variant 0.19
gyrA 8198 c.897T>C synonymous_variant 0.19
gyrA 8207 c.906T>C synonymous_variant 0.18
gyrA 8210 c.909G>A synonymous_variant 0.18
gyrA 8219 c.918T>C synonymous_variant 0.17
gyrA 8225 c.924T>C synonymous_variant 0.12
rpoB 761249 c.1443A>G synonymous_variant 0.14
rpoB 761261 c.1455G>C synonymous_variant 0.13
rpoB 761264 c.1458C>G synonymous_variant 0.12
rpoB 761273 c.1467T>C synonymous_variant 0.12
rpoB 762245 c.2439G>C synonymous_variant 0.1
rpoB 762284 c.2478G>C synonymous_variant 0.15
rpoB 762293 c.2487T>C synonymous_variant 0.15
rpoB 762296 c.2490G>C synonymous_variant 0.15
rpoB 762317 c.2511A>G synonymous_variant 0.12
rpoB 762338 c.2532T>C synonymous_variant 0.1
rpoB 762347 c.2541T>C synonymous_variant 0.1
rpoC 762404 c.-966T>C upstream_gene_variant 0.11
rpoC 763028 c.-342T>C upstream_gene_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 0.11
rpoC 763049 c.-321G>A upstream_gene_variant 0.12
rpoC 763053 c.-317_-315delTTGinsCTC upstream_gene_variant 0.1
rpoC 763070 c.-300T>C upstream_gene_variant 0.11
rpoC 763076 c.-294C>G upstream_gene_variant 0.11
rpoC 763079 c.-291C>G upstream_gene_variant 0.11
rpoC 763085 c.-285C>G upstream_gene_variant 0.11
rpoC 763103 c.-267G>C upstream_gene_variant 0.1
rpoC 763115 c.-255T>C upstream_gene_variant 0.1
rpoC 763169 c.-201A>G upstream_gene_variant 0.1
rpoC 763181 c.-189G>C upstream_gene_variant 0.11
rpoC 763187 c.-183C>G upstream_gene_variant 0.11
rpoC 763202 c.-168A>G upstream_gene_variant 0.11
rpsL 781658 c.99A>G synonymous_variant 0.1
rpsL 781682 c.123T>C synonymous_variant 0.1
rpsL 781715 c.156T>C synonymous_variant 0.11
Rv1258c 1406686 p.Val219Ile missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.14
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.14
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.2
rrs 1472221 n.376G>A non_coding_transcript_exon_variant 0.18
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.33
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.4
rrs 1472289 n.444T>C non_coding_transcript_exon_variant 0.4
rrs 1472290 n.445C>A non_coding_transcript_exon_variant 0.4
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.5
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.4
rrs 1472324 n.479G>T non_coding_transcript_exon_variant 0.5
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.5
rrs 1472337 n.492C>G non_coding_transcript_exon_variant 0.5
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.4
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.4
rrs 1473274 n.1429C>A non_coding_transcript_exon_variant 0.29
rrs 1473365 n.1520C>A non_coding_transcript_exon_variant 0.25
rrl 1473614 n.-44C>A upstream_gene_variant 0.29
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.29
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.25
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.4
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.4
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.4
rrl 1474709 n.1053delT non_coding_transcript_exon_variant 0.43
rrl 1474714 n.1058delT non_coding_transcript_exon_variant 0.43
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.43
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.43
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.4
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.29
rrl 1474986 n.1329G>T non_coding_transcript_exon_variant 0.12
rrl 1475164 n.1507C>A non_coding_transcript_exon_variant 0.22
rrl 1475343 n.1686A>G non_coding_transcript_exon_variant 0.33
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.33
rrl 1475358 n.1701T>C non_coding_transcript_exon_variant 0.33
rrl 1475363 n.1706C>T non_coding_transcript_exon_variant 0.33
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.4
rrl 1475380 n.1723C>A non_coding_transcript_exon_variant 0.4
rrl 1475381 n.1724G>T non_coding_transcript_exon_variant 0.4
rrl 1475382 n.1725A>C non_coding_transcript_exon_variant 0.4
rrl 1475395 n.1738T>G non_coding_transcript_exon_variant 0.5
rrl 1475396 n.1739C>G non_coding_transcript_exon_variant 0.4
rrl 1475397 n.1740G>T non_coding_transcript_exon_variant 0.4
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.4
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.4
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.5
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.67
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.43
rrl 1475759 n.2102C>T non_coding_transcript_exon_variant 0.43
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.43
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.43
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.38
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.43
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.43
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.31
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.31
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.31
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.3
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.3
rrl 1476034 n.2377C>G non_coding_transcript_exon_variant 0.3
rrl 1476035 n.2378G>C non_coding_transcript_exon_variant 0.3
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.3
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.3
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.3
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.3
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 0.33
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.5
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.67
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.4
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.4
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.4
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.5
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.5
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.5
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.38
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.57
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.57
rrl 1476502 n.2845G>T non_coding_transcript_exon_variant 0.17
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.22
rrl 1476583 n.2926G>C non_coding_transcript_exon_variant 0.5
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.5
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.38
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.29
rrl 1476674 n.3017T>C non_coding_transcript_exon_variant 0.25
rrl 1476679 n.3022T>C non_coding_transcript_exon_variant 0.25
rpsA 1833688 p.Asp49Glu missense_variant 0.18
rpsA 1833734 p.Ala65Thr missense_variant 0.14
katG 2156341 c.-230G>T upstream_gene_variant 0.15
PPE35 2168854 p.Pro587Thr missense_variant 0.2
PPE35 2168959 p.Ala552Ser missense_variant 0.17
PPE35 2169135 p.Pro493Gln missense_variant 0.13
PPE35 2169312 p.Thr434Lys missense_variant 0.13
PPE35 2169896 c.717C>A synonymous_variant 0.15
Rv1979c 2221755 c.1410C>A synonymous_variant 0.13
ald 3087632 p.Gln271His missense_variant 0.17
Rv3236c 3612348 p.Asp257Tyr missense_variant 0.12
fbiA 3640398 c.-145G>T upstream_gene_variant 0.2
clpC1 4038704 c.2001T>C synonymous_variant 0.11
clpC1 4038707 c.1998C>G synonymous_variant 0.11
clpC1 4038710 c.1995G>C synonymous_variant 0.12
clpC1 4038713 c.1992T>C synonymous_variant 0.11
clpC1 4038755 c.1950G>C synonymous_variant 0.12
clpC1 4038773 c.1932T>C synonymous_variant 0.12
clpC1 4038779 c.1926C>G synonymous_variant 0.12
clpC1 4038782 c.1923G>C synonymous_variant 0.12
clpC1 4038795 p.Ser637Thr missense_variant 0.12
clpC1 4039382 c.1323C>G synonymous_variant 0.11
clpC1 4039391 c.1314T>G synonymous_variant 0.1
clpC1 4039394 c.1311G>C synonymous_variant 0.11
clpC1 4039397 c.1308A>G synonymous_variant 0.11
clpC1 4039409 c.1296T>C synonymous_variant 0.12
clpC1 4039412 c.1293T>G synonymous_variant 0.12
clpC1 4039415 p.Glu430Asp missense_variant 0.12
clpC1 4039430 c.1275T>C synonymous_variant 0.12
clpC1 4039442 c.1263A>G synonymous_variant 0.1
clpC1 4039448 c.1257A>G synonymous_variant 0.1
clpC1 4039463 c.1242C>G synonymous_variant 0.1
panD 4044249 p.His11Gln missense_variant 0.12
whiB6 4338553 c.-32C>A upstream_gene_variant 0.13