TB-Profiler result

Run: SRR8692818
Summary

Run ID: SRR8692818

Sample name:

Date: 13-08-2023 20:53:29

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 1.0
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 0.78 linezolid
folC 2747143 p.Phe152Leu missense_variant 0.2 para-aminosalicylic_acid
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 6485 p.Ala416Ser missense_variant 0.14
gyrB 6494 p.Ala419Ser missense_variant 0.14
gyrA 7357 p.Asp19Gly missense_variant 0.11
gyrA 7658 c.357A>G synonymous_variant 0.1
gyrA 7664 c.363T>C synonymous_variant 0.11
gyrA 7670 c.369A>G synonymous_variant 0.11
gyrA 7676 c.375G>C synonymous_variant 0.11
gyrA 7679 c.378G>C synonymous_variant 0.11
gyrA 7683 c.382_384delAGGinsCGC synonymous_variant 0.11
gyrA 7694 c.393A>G synonymous_variant 0.11
gyrA 7710 c.409T>C synonymous_variant 0.1
gyrA 7728 c.427A>C synonymous_variant 0.1
gyrA 8090 c.789C>G synonymous_variant 0.12
gyrA 8096 c.795T>G synonymous_variant 0.12
gyrA 8099 c.798T>C synonymous_variant 0.12
gyrA 8108 c.807G>C synonymous_variant 0.12
gyrA 8129 c.828T>C synonymous_variant 0.13
gyrA 8135 c.834C>G synonymous_variant 0.13
gyrA 8156 c.855T>C synonymous_variant 0.14
gyrA 8168 c.867A>G synonymous_variant 0.16
gyrA 8177 c.876A>C synonymous_variant 0.18
gyrA 8189 c.888G>C synonymous_variant 0.19
gyrA 8190 p.Ala297Thr missense_variant 0.19
gyrA 8198 c.897T>C synonymous_variant 0.14
gyrA 9299 c.1998G>C synonymous_variant 0.1
gyrA 9304 p.Gly668Glu missense_variant 0.12
gyrA 9311 c.2010C>T synonymous_variant 0.15
gyrA 9325 p.Ser675Cys missense_variant 0.1
fgd1 491281 p.Asp167Tyr missense_variant 0.14
mshA 575856 p.Ala170Glu missense_variant 0.14
ccsA 619932 c.42C>A synonymous_variant 0.12
ccsA 619988 p.Ala33Glu missense_variant 0.13
rpoB 760434 p.Val210Phe missense_variant 0.12
rpoB 760877 c.1071G>T synonymous_variant 0.13
rpoB 760880 c.1074G>C synonymous_variant 0.12
rpoB 760883 c.1077G>C synonymous_variant 0.13
rpoB 760886 c.1080A>G synonymous_variant 0.13
rpoB 760887 p.Thr361Val missense_variant 0.13
rpoB 760910 c.1104C>T synonymous_variant 0.14
rpoB 760919 c.1113C>T synonymous_variant 0.15
rpoB 760925 c.1119T>C synonymous_variant 0.15
rpoB 762101 c.2295C>G synonymous_variant 0.11
rpoB 762114 p.Ile770Val missense_variant 0.11
rpoB 762131 c.2325C>G synonymous_variant 0.14
rpoB 762137 c.2331C>T synonymous_variant 0.13
rpoB 762140 c.2334G>C synonymous_variant 0.12
rpoB 762143 c.2337T>C synonymous_variant 0.13
rpoB 762149 c.2343G>C synonymous_variant 0.13
rpoB 762156 p.Val784Ile missense_variant 0.16
rpoB 762167 c.2361T>C synonymous_variant 0.15
rpoB 762176 c.2370T>C synonymous_variant 0.15
rpoB 762185 c.2379G>C synonymous_variant 0.16
rpoC 763495 c.126G>A synonymous_variant 0.12
rpoC 763573 c.204G>C synonymous_variant 0.1
rpoC 764764 c.1395T>C synonymous_variant 0.11
rpoC 766129 c.2760C>A synonymous_variant 0.15
mmpS5 778763 p.Pro48Gln missense_variant 0.12
mmpS5 779626 c.-721G>T upstream_gene_variant 0.12
fbiC 1303876 p.Ala316Ser missense_variant 0.12
Rv1258c 1406686 p.Val219Ile missense_variant 1.0
Rv1258c 1406817 p.Trp175Leu missense_variant 0.12
Rv1258c 1406857 p.Gly162Cys missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472040 n.195T>G non_coding_transcript_exon_variant 0.11
rrs 1472043 n.198T>G non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.12
rrs 1472362 n.517C>A non_coding_transcript_exon_variant 0.13
rrs 1472699 n.854G>A non_coding_transcript_exon_variant 0.12
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.38
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.1
rrs 1472848 n.1003T>G non_coding_transcript_exon_variant 0.1
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.1
rrs 1472857 n.1012A>G non_coding_transcript_exon_variant 0.11
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.12
rrs 1472859 n.1014G>C non_coding_transcript_exon_variant 0.12
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.12
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.13
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.11
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.12
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.16
rrl 1473814 n.157A>C non_coding_transcript_exon_variant 0.16
rrl 1473815 n.158T>G non_coding_transcript_exon_variant 0.16
rrl 1473816 n.159C>G non_coding_transcript_exon_variant 0.16
rrl 1473828 n.171G>C non_coding_transcript_exon_variant 0.19
rrl 1473829 n.172G>C non_coding_transcript_exon_variant 0.19
rrl 1473830 n.173T>G non_coding_transcript_exon_variant 0.19
rrl 1473831 n.174G>T non_coding_transcript_exon_variant 0.19
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.13
rrl 1475343 n.1686A>G non_coding_transcript_exon_variant 0.22
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.2
rrl 1475358 n.1701T>C non_coding_transcript_exon_variant 0.2
rrl 1475363 n.1706C>T non_coding_transcript_exon_variant 0.2
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.2
rrl 1475380 n.1723C>A non_coding_transcript_exon_variant 0.2
rrl 1475381 n.1724G>T non_coding_transcript_exon_variant 0.2
rrl 1475382 n.1725A>C non_coding_transcript_exon_variant 0.2
rrl 1475395 n.1738T>G non_coding_transcript_exon_variant 0.18
rrl 1475396 n.1739C>G non_coding_transcript_exon_variant 0.18
rrl 1475397 n.1740G>T non_coding_transcript_exon_variant 0.18
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.18
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.17
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.17
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.17
rrl 1476583 n.2926G>C non_coding_transcript_exon_variant 0.14
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.13
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.14
fabG1 1673177 c.-263G>T upstream_gene_variant 0.12
rpsA 1834690 c.1149T>C synonymous_variant 0.12
rpsA 1834700 p.Gln387Ala missense_variant 0.12
rpsA 1834705 c.1164C>G synonymous_variant 0.12
rpsA 1834732 c.1191T>C synonymous_variant 0.15
rpsA 1834738 p.Glu399Asp missense_variant 0.11
rpsA 1834753 c.1212T>C synonymous_variant 0.11
rpsA 1834759 c.1218A>C synonymous_variant 0.11
rpsA 1834765 p.Glu408Asp missense_variant 0.12
rpsA 1834775 p.Ala412Thr missense_variant 0.16
rpsA 1834786 c.1245A>G synonymous_variant 0.16
rpsA 1834789 c.1248T>C synonymous_variant 0.16
rpsA 1834810 c.1269C>T synonymous_variant 0.13
ndh 2101903 c.1140C>A synonymous_variant 0.12
ndh 2102139 p.Arg302Trp missense_variant 0.13
ndh 2102236 c.807C>A synonymous_variant 0.15
ndh 2102790 p.Leu85Met missense_variant 0.12
katG 2154618 c.1494C>A synonymous_variant 0.12
Rv1979c 2222260 p.Thr302Lys missense_variant 0.13
pncA 2288824 p.Arg140Cys missense_variant 0.17
kasA 2519197 c.1083G>T synonymous_variant 0.16
eis 2715177 c.156C>A synonymous_variant 0.14
folC 2747159 p.Pro147Gln missense_variant 0.2
folC 2747453 p.Arg49Leu missense_variant 0.12
pepQ 2860373 p.Ala16Ser missense_variant 0.12
Rv2752c 3066273 c.-82G>T upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 0.1
fprA 3475359 p.Leu451Phe missense_variant 0.15
whiB7 3568864 c.-185G>T upstream_gene_variant 0.12
alr 3841023 p.Ser133Phe missense_variant 0.13
rpoA 3877803 c.705G>C synonymous_variant 0.12
rpoA 3877818 c.690A>G synonymous_variant 0.1
embC 4240774 c.912C>G synonymous_variant 0.14
embC 4240777 p.Glu305Asp missense_variant 0.14
embC 4240780 c.918T>C synonymous_variant 0.14
embC 4240783 c.921G>C synonymous_variant 0.14
embC 4240789 c.927T>C synonymous_variant 0.13
embC 4240819 c.957A>C synonymous_variant 0.17
embC 4240822 c.960C>G synonymous_variant 0.17
embC 4240831 c.969T>G synonymous_variant 0.16
embC 4240855 c.993G>C synonymous_variant 0.17
embC 4240857 p.Ala332Gly missense_variant 0.17
embC 4240867 c.1005T>G synonymous_variant 0.12
embC 4240869 c.1007_1008insGG frameshift_variant 0.12
embC 4240873 c.1012_1013delAG frameshift_variant 0.12
embC 4240885 c.1023T>C synonymous_variant 0.12
embC 4240892 p.Met344Val missense_variant 0.12
embC 4240897 c.1035C>G synonymous_variant 0.12
embC 4240900 c.1038A>G synonymous_variant 0.13
embC 4242846 p.Arg995His missense_variant 0.12
embA 4243831 p.Gly200Val missense_variant 0.12
embA 4245115 p.Gly628Val missense_variant 0.14
embB 4247538 p.His342Arg missense_variant 0.2
embB 4247950 c.1437G>A synonymous_variant 0.13
embB 4249360 c.2847G>T synonymous_variant 0.15