TB-Profiler result

Run: ERR3957933
Summary

Run ID: ERR3957933

Sample name:

Date: 01-04-2023 03:41:12

Number of reads: 2333373

Percentage reads mapped: 94.99

Strain: lineage4.1.1.3

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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 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 0.35
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.1
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.1
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.2
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.11
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.11
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.23
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.17
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.16
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.11
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.12
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.12
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.14
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.14
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.17
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.15
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.15
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.16
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.2
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.14
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.13
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.13
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.13
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.12
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.12
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.12
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.17
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.18
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.18
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.2
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.11
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.12
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.11
rrs 1473289 n.1444_1445insTTTTG non_coding_transcript_exon_variant 0.11
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.1
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.18
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.11
rrl 1474634 n.977T>C non_coding_transcript_exon_variant 0.13
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.12
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.12
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.12
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.16
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.16
rrl 1474709 n.1052G>A non_coding_transcript_exon_variant 0.1
rrl 1475499 n.1842C>T non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.1
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.11
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.11
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.11
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.1
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.1
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.1
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.1
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.11
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.11
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.11
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.11
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.11
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.13
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.1
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.11
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.12
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.19
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.2
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.17
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.15
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.11
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.11
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
rpsA 1833727 c.186G>A synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169632 c.981C>A synonymous_variant 1.0
PPE35 2170062 c.550delG frameshift_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.39
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.57
embB 4248319 c.1806A>T synonymous_variant 0.2
embB 4248324 p.Ala604Gly missense_variant 0.36
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4328408 c.-935C>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0