TB-Profiler result

Run: SRR7535054
Summary

Run ID: SRR7535054

Sample name:

Date: 04-04-2023 19:42:51

Number of reads: 2586121

Percentage reads mapped: 23.13

Strain: lineage4.6.1

Drug-resistance: Sensitive

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
lineage4.6 Euro-American T;LAM None 0.99
lineage4.6.1 Euro-American (Uganda) T2 RD724 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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762911 p.Ile1035Met missense_variant 0.13
rpoC 762923 c.-447C>G upstream_gene_variant 0.12
rpoC 762929 c.-441G>T upstream_gene_variant 0.12
rpoC 762932 c.-438G>T upstream_gene_variant 0.12
rpoB 762939 p.Met1045Leu missense_variant 0.11
rpoB 762942 p.Ile1046Val missense_variant 0.11
rpoC 762947 c.-423C>G upstream_gene_variant 0.11
rpoC 764905 c.1536C>T synonymous_variant 0.12
rpoC 764911 c.1542A>C synonymous_variant 0.12
rpoC 764914 p.Met515Ile missense_variant 0.11
rpoC 764918 p.Val517Ile missense_variant 0.11
rpoC 764939 c.1570C>T synonymous_variant 0.13
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 0.18
rrs 1471877 n.32A>T non_coding_transcript_exon_variant 0.18
rrs 1471878 n.33C>T non_coding_transcript_exon_variant 0.17
rrs 1471892 n.47G>A non_coding_transcript_exon_variant 0.17
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.12
rrs 1471898 n.53A>T non_coding_transcript_exon_variant 0.12
rrs 1471901 n.56A>G non_coding_transcript_exon_variant 0.12
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.22
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.22
rrs 1472129 n.284G>T non_coding_transcript_exon_variant 0.22
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.22
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.2
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.18
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.18
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.27
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.77
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.76
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.76
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.74
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.74
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.76
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.74
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.74
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.67
rrs 1472278 n.433C>T non_coding_transcript_exon_variant 0.18
rrs 1472279 n.434T>G non_coding_transcript_exon_variant 0.18
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.17
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.17
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.17
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.6
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.6
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.64
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.77
rrs 1472785 n.940G>T non_coding_transcript_exon_variant 0.77
rrs 1472786 n.941C>G non_coding_transcript_exon_variant 0.77
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.79
rrs 1472814 n.969G>A non_coding_transcript_exon_variant 0.53
rrs 1472824 n.979T>C non_coding_transcript_exon_variant 0.33
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.25
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.4
rrl 1474221 n.564T>C non_coding_transcript_exon_variant 0.4
rrl 1474228 n.571T>A non_coding_transcript_exon_variant 0.43
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.29
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.25
rrl 1474253 n.596A>T non_coding_transcript_exon_variant 0.25
rrl 1474545 n.888G>T non_coding_transcript_exon_variant 0.15
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.29
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.29
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.6
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.6
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.67
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.67
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.67
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.67
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.66
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.7
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.7
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.68
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.64
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.72
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.72
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.69
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.67
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.57
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.55
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.5
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.5
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.52
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.52
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.5
rrl 1476483 n.2826G>A non_coding_transcript_exon_variant 0.39
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.2
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.24
PPE35 2170048 p.Leu189Val missense_variant 0.11
PPE35 2170053 p.Thr187Ser missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0