TB-Profiler result

Run: SRR6397975
Summary

Run ID: SRR6397975

Sample name:

Date: 04-04-2023 14:19:16

Number of reads: 5475708

Percentage reads mapped: 93.7

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 1472644 n.799C>T non_coding_transcript_exon_variant 0.11 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.21 streptomycin
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779626 c.-721G>C upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.11
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.11
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.14
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.13
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.24
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.24
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.38
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.42
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.43
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.44
rrs 1472555 n.710C>T non_coding_transcript_exon_variant 0.46
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.46
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.4
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.35
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.55
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.47
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.48
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.35
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.16
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.18
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.21
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.22
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.21
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.21
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.21
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.21
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.21
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.12
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.11
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.12
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.1
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.1
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.1
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.1
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.1
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.1
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.1
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.17
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.16
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.12
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.11
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.1
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.27
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.28
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.23
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.23
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.22
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.26
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.19
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.23
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.12
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.14
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.14
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.14
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.13
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.13
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.12
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.12
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.11
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.11
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.12
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.12
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.2
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.1
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.11
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.13
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.12
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.11
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.12
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.1
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.15
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.13
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.15
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.34
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.42
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.46
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.46
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.48
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.53
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.55
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.56
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.61
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.66
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.65
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.49
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.27
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.18
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407528 c.675A>C stop_lost&splice_region_variant 1.0