TB-Profiler result

Run: SRR4033434
Summary

Run ID: SRR4033434

Sample name:

Date: 04-04-2023 06:05:56

Number of reads: 4724779

Percentage reads mapped: 70.73

Strain: lineage4.3.2.1

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
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
gyrB 5520 p.Pro94Leu missense_variant 0.98
gyrA 7222 c.-80C>T upstream_gene_variant 0.98
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762872 p.Met1022Ile missense_variant 0.1
rpoB 762878 p.Ile1024Met missense_variant 0.11
rpoB 762879 p.Met1025Leu missense_variant 0.11
rpoC 762899 c.-471G>C upstream_gene_variant 0.16
rpoB 762925 p.Thr1040Ile missense_variant 0.22
rpoC 762929 c.-441G>C upstream_gene_variant 0.2
rpoB 762939 p.Met1045Leu missense_variant 0.16
rpoB 762942 p.Ile1046Val missense_variant 0.17
rpoC 762980 c.-390T>C upstream_gene_variant 0.11
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 1471876 n.31G>A non_coding_transcript_exon_variant 0.12
rrs 1471877 n.32A>G non_coding_transcript_exon_variant 0.12
rrs 1471892 n.47G>A non_coding_transcript_exon_variant 0.11
rrs 1471893 n.48T>G non_coding_transcript_exon_variant 0.11
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.11
rrs 1471917 n.72G>A non_coding_transcript_exon_variant 0.12
rrs 1471918 n.74_78delAAGGT non_coding_transcript_exon_variant 0.13
rrs 1471934 n.89A>T non_coding_transcript_exon_variant 0.12
rrs 1471935 n.92_96delCTCGA non_coding_transcript_exon_variant 0.13
rrs 1471948 n.103A>G non_coding_transcript_exon_variant 0.12
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.99
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.15
rrs 1472715 n.870C>A non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.14
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.25
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.24
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.24
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.27
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.24
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.18
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.15
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.1
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.12
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.13
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.13
rrl 1476266 n.2609G>A non_coding_transcript_exon_variant 0.14
rrl 1476279 n.2622G>C non_coding_transcript_exon_variant 0.13
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.13
rrl 1476281 n.2624T>A non_coding_transcript_exon_variant 0.13
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.14
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.15
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.14
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.2
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.2
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.2
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.26
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.24
rrl 1476339 n.2682G>A non_coding_transcript_exon_variant 0.26
rrl 1476356 n.2699C>T non_coding_transcript_exon_variant 0.31
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.32
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.35
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.34
rrl 1476384 n.2727G>A non_coding_transcript_exon_variant 0.33
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.35
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.38
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.3
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.3
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.26
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.25
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.25
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.24
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.23
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.2
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.12
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0