TB-Profiler result

Run: ERR4828811
Summary

Run ID: ERR4828811

Sample name:

Date: 01-04-2023 19:06:10

Number of reads: 2886198

Percentage reads mapped: 87.02

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.28 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.2 kanamycin, capreomycin, aminoglycosides, amikacin
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
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 0.18
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304121 c.1191A>G synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.12
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.17
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.17
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.27
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.27
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.38
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.36
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.36
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.18
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.17
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.5
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.25
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.25
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.29
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.22
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.22
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.18
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.45
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.24
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.21
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.15
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.47
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.16
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.43
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.43
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.17
rrs 1472827 n.982G>C non_coding_transcript_exon_variant 0.36
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.5
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.25
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.31
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.27
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.27
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.33
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.24
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.24
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.24
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.22
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.22
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.22
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.22
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.29
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.27
rrs 1473288 n.1443C>T non_coding_transcript_exon_variant 0.27
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.29
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.27
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.29
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.32
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.3
rrs 1473324 n.1479G>A non_coding_transcript_exon_variant 0.29
rrl 1473845 n.188G>C non_coding_transcript_exon_variant 0.5
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.6
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.6
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.6
rrl 1475836 n.2179C>A non_coding_transcript_exon_variant 0.29
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.33
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.33
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.33
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.33
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.33
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.33
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.5
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.17
rrl 1476585 n.2928A>G 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 0.19
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.18
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.17
rpsA 1834548 p.Gln336Arg missense_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449926 p.Glu475Lys missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878648 c.-141C>G upstream_gene_variant 0.18
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.14
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338498 p.Glu8Asp missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0