TB-Profiler result

Run: SRR1173335
Summary

Run ID: SRR1173335

Sample name:

Date: 03-04-2023 03:22:07

Number of reads: 29145

Percentage reads mapped: 1.11

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
rpoC 762899 c.-471G>C upstream_gene_variant 1.0
rpoC 762917 c.-453C>G upstream_gene_variant 1.0
rpoC 762920 c.-450C>T upstream_gene_variant 1.0
rpoC 762923 c.-447C>G upstream_gene_variant 1.0
rpoB 762925 p.Thr1040Ile missense_variant 1.0
rpoB 762939 p.Met1045Leu missense_variant 1.0
rpoB 762942 p.Ile1046Val missense_variant 1.0
rpoC 762962 c.-408C>T upstream_gene_variant 1.0
rpoC 762989 c.-381G>C upstream_gene_variant 1.0
rpoC 762995 c.-375G>T upstream_gene_variant 1.0
rpoC 764611 c.1242G>T synonymous_variant 1.0
rpoC 764632 c.1263T>C synonymous_variant 1.0
rpoC 764641 c.1272C>T synonymous_variant 1.0
rpoC 764650 c.1281G>T synonymous_variant 1.0
rpoC 764663 p.Val432Thr missense_variant 1.0
rpoC 764668 c.1299C>T synonymous_variant 1.0
rpoC 764672 p.Gln435Glu missense_variant 1.0
rpoC 764677 c.1308C>G synonymous_variant 1.0
rpoC 764695 c.1326T>C synonymous_variant 1.0
rpoC 764701 c.1332C>G synonymous_variant 1.0
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 1.0
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 1.0
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 1.0
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.88
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.84
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.2
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.22
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 1.0
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>T non_coding_transcript_exon_variant 1.0
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.63
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 1.0
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.67
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 1.0
rrs 1472264 n.419T>C non_coding_transcript_exon_variant 0.33
rrs 1472266 n.421C>A non_coding_transcript_exon_variant 0.33
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.78
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.7
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.77
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.83
rrs 1472553 n.708C>T non_coding_transcript_exon_variant 0.86
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.9
rrs 1472572 n.727T>C non_coding_transcript_exon_variant 0.9
rrs 1472574 n.729T>C non_coding_transcript_exon_variant 0.9
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.9
rrs 1472582 n.737G>A non_coding_transcript_exon_variant 0.9
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.9
rrs 1472584 n.739A>G non_coding_transcript_exon_variant 0.9
rrs 1472594 n.749G>C non_coding_transcript_exon_variant 0.91
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.91
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.91
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.83
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.56
rrs 1472714 n.869A>C non_coding_transcript_exon_variant 0.9
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.9
rrs 1472716 n.871C>A non_coding_transcript_exon_variant 0.92
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.99
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.82
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 1.0
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 1.0
rrs 1472826 n.981G>C non_coding_transcript_exon_variant 1.0
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 1.0
rrs 1472912 n.1067C>T non_coding_transcript_exon_variant 0.67
rrs 1472917 n.1072G>A non_coding_transcript_exon_variant 0.67
rrs 1473139 n.1294T>C non_coding_transcript_exon_variant 0.86
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.94
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.94
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 1.0
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 1.0
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.98
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 1.0
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 1.0
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.97
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 1.0
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 1.0
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 1.0
rrl 1475538 n.1881T>C non_coding_transcript_exon_variant 1.0
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 1.0
rrl 1475540 n.1883C>T non_coding_transcript_exon_variant 1.0
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 1.0
rrl 1475550 n.1893A>C non_coding_transcript_exon_variant 1.0
rrl 1475551 n.1894T>G non_coding_transcript_exon_variant 1.0
rrl 1475555 n.1898T>G non_coding_transcript_exon_variant 1.0
rrl 1475564 n.1907C>A non_coding_transcript_exon_variant 1.0
rrl 1475574 n.1917C>G non_coding_transcript_exon_variant 1.0
rrl 1475575 n.1918C>T non_coding_transcript_exon_variant 1.0
rrl 1475576 n.1919C>G non_coding_transcript_exon_variant 1.0
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 1.0
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 1.0
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 1.0
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 1.0
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 1.0
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 1.0
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 1.0
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 1.0
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 1.0
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 1.0
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 1.0
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 1.0
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 1.0
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 1.0
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.79
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.22
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 1.0
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.77
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 1.0
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.77
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 1.0
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 1.0
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.99
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.81
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.81
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.8
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 1.0
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 1.0
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.83
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 1.0
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 1.0
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 1.0
clpC1 4039496 p.Ile403Met missense_variant 1.0
clpC1 4039526 c.1179G>C synonymous_variant 1.0
clpC1 4039533 p.Asn391Thr missense_variant 1.0
clpC1 4039546 p.Asp387Asn missense_variant 1.0
clpC1 4039549 p.Ala386Ser missense_variant 1.0
clpC1 4039559 c.1146C>G synonymous_variant 1.0
clpC1 4039562 c.1143C>G synonymous_variant 1.0
clpC1 4039570 p.Met379Leu missense_variant 1.0
clpC1 4039574 p.Ala377Gly missense_variant 1.0