TB-Profiler result

Run: SRR21240064
Summary

Run ID: SRR21240064

Sample name:

Date: 04-04-2023 00:06:08

Number of reads: 4889524

Percentage reads mapped: 91.67

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.16
rpoB 761786 c.1980C>T synonymous_variant 1.0
rpoC 764995 c.1626C>G synonymous_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 1472990 n.1145A>T non_coding_transcript_exon_variant 0.11
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.11
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.11
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.11
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.15
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.14
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.11
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.11
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.1
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.11
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.13
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.16
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.2
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.2
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.2
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.2
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.2
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.2
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.19
rrs 1473291 n.1446G>A non_coding_transcript_exon_variant 0.16
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.15
rrs 1473316 n.1471C>A non_coding_transcript_exon_variant 0.12
rrs 1473318 n.1473G>A non_coding_transcript_exon_variant 0.12
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.12
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.12
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.12
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.11
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.12
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.18
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.18
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.15
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.15
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.15
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.15
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.14
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.14
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.14
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.14
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.14
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.24
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.29
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.34
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.36
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.35
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.35
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.35
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.35
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.34
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.35
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.35
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.36
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.44
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.41
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.34
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.29
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.29
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.22
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.27
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.27
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.28
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.28
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.27
rrl 1476543 n.2886G>A non_coding_transcript_exon_variant 0.23
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.29
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.28
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.25
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.24
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.22
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.13
pepQ 2860519 c.-101C>T upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474438 p.Asp144Glu missense_variant 0.87
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248324 p.Ala604Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0