TB-Profiler result

Run: ERR4821408
Summary

Run ID: ERR4821408

Sample name:

Date: 01-04-2023 17:14:23

Number of reads: 2386447

Percentage reads mapped: 92.3

Strain: lineage4.1.2

Drug-resistance: Sensitive

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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
lineage4.1.2 Euro-American T;H 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
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 6907 c.-395C>A upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9648 p.Val783Met missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 762167 c.2361T>C synonymous_variant 0.1
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 764503 c.1134G>T synonymous_variant 0.12
rpoC 764509 c.1140G>C synonymous_variant 0.15
rpoC 764512 c.1143G>C synonymous_variant 0.14
rpoC 764521 c.1152T>C synonymous_variant 0.16
rpoC 764530 c.1161C>T synonymous_variant 0.16
rpoC 764536 c.1167G>C synonymous_variant 0.18
rpoC 764543 p.Thr392Ala missense_variant 0.2
rpoC 764548 c.1179G>C synonymous_variant 0.2
rpoC 764573 p.Leu402Ile missense_variant 0.2
rpoC 764578 c.1209C>G synonymous_variant 0.21
rpoC 764581 c.1212T>C synonymous_variant 0.2
rpoC 764582 p.Leu405Met missense_variant 0.21
rpoC 764593 c.1224C>T synonymous_variant 0.21
rpoC 764602 c.1233C>T synonymous_variant 0.24
rpoC 764605 c.1236G>T synonymous_variant 0.24
rpoC 764611 c.1242G>T synonymous_variant 0.26
rpoC 764626 c.1257C>T synonymous_variant 0.24
rpoC 764632 c.1263T>C synonymous_variant 0.2
rpoC 764647 c.1278C>T synonymous_variant 0.15
rpoC 764650 c.1281G>T synonymous_variant 0.14
rpoC 764653 c.1284G>C synonymous_variant 0.14
rpoC 764656 c.1287C>T synonymous_variant 0.13
rpoC 764662 c.1293G>C synonymous_variant 0.12
rpoC 764678 p.Lys437Gln missense_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.33
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.62
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.69
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.69
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.69
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.74
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.72
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.72
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.9
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.83
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 1.0
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 1.0
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 1.0
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 1.0
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 1.0
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 1.0
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 1.0
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 1.0
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 1.0
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 1.0
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 1.0
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 1.0
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 1.0
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.86
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.87
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.87
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.87
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.87
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.88
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.88
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.88
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 1.0
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.88
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.88
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.79
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.79
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.79
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.78
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.67
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.21
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.63
rrs 1473101 n.1256C>T non_coding_transcript_exon_variant 0.63
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.63
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.6
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.6
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.58
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.58
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.6
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.59
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.36
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.35
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.32
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.28
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.35
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.34
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.32
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.32
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.26
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.31
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 1.0
rrl 1474200 n.545delT non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.79
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.82
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.87
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.87
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.86
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.77
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.43
rpsA 1834294 c.753G>C synonymous_variant 0.13
rpsA 1834298 p.Gln253Glu missense_variant 0.12
rpsA 1834306 c.765T>C synonymous_variant 0.11
rpsA 1834309 p.Asp256Glu missense_variant 0.11
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
Rv3236c 3611974 c.1143A>C synonymous_variant 0.97
rpoA 3878527 c.-20C>T upstream_gene_variant 0.12
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