TB-Profiler result

Run: SRR6046483
Summary

Run ID: SRR6046483

Sample name:

Date: 04-04-2023 12:17:41

Number of reads: 1244358

Percentage reads mapped: 90.59

Strain: lineage4.6.3

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.3 Euro-American T;LAM 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 1472733 n.888G>A non_coding_transcript_exon_variant 0.22 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.13 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 8049 p.Ser250Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620072 p.Pro61Leu missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.43
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776987 c.1493delC frameshift_variant 1.0
mmpS5 778673 p.Pro78Leu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304136 c.1206C>G synonymous_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.25
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.29
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.5
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.67
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.67
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.71
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.71
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.71
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.71
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.57
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.43
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.38
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.75
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.22
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.44
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.44
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.22
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.75
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.67
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.5
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.5
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.4
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.4
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.33
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.56
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.25
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.22
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.33
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.29
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.29
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.29
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.3
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.3
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.3
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.33
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.22
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.25
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.25
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.25
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.25
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.25
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.25
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.25
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.29
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.14
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.11
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.12
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.4
rrl 1475552 n.1895G>C non_coding_transcript_exon_variant 0.67
rrl 1475574 n.1917C>A non_coding_transcript_exon_variant 0.67
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.5
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.29
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.43
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.67
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.67
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.75
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.33
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.83
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.83
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.83
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.67
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.5
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.43
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.25
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.5
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.5
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.4
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.5
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.5
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.29
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.33
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.29
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.57
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.6
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.4
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.5
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.5
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.45
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.42
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.33
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.45
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.56
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.44
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.2
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.13
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.46
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.54
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.45
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.15
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.67
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.31
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.19
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.17
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167876 c.2736dupC frameshift_variant 1.0
PPE35 2170082 c.531T>G synonymous_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086733 c.-87G>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242185 p.Asp775Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243380 p.Thr50Pro missense_variant 0.25
aftB 4268573 p.Met88Ile missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0