TB-Profiler result

Run: SRR1062933
Summary

Run ID: SRR1062933

Sample name:

Date: 02-04-2023 18:41:22

Number of reads: 58649

Percentage reads mapped: 2.17

Strain: lineage4.9

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
lineage4.9 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
rpoB 760769 c.963C>T synonymous_variant 0.67
rpoC 762887 c.-483G>C upstream_gene_variant 0.67
rpoC 762899 c.-471G>C upstream_gene_variant 0.88
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 0.88
rpoC 762995 c.-375G>T upstream_gene_variant 0.88
rpoC 764566 c.1197C>G synonymous_variant 0.75
rpoC 764575 c.1206T>G synonymous_variant 0.8
rpoC 764581 c.1212T>C synonymous_variant 0.8
rpoC 764582 p.Leu405Met missense_variant 0.8
rpoC 764587 c.1218C>G synonymous_variant 1.0
rpoC 764605 c.1236G>C synonymous_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 0.88
rpoC 764672 p.Gln435Glu missense_variant 0.88
rpoC 764677 c.1308C>G synonymous_variant 0.88
rpoC 764695 c.1326T>C synonymous_variant 0.67
rpoC 767034 p.Ser1222* stop_gained 1.0
fbiC 1304316 c.1386G>T synonymous_variant 1.0
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.97
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.97
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.97
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.97
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.97
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.97
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.96
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.96
rrs 1472264 n.419T>C non_coding_transcript_exon_variant 0.96
rrs 1472266 n.421C>A non_coding_transcript_exon_variant 0.96
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.94
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.8
rrs 1472333 n.488G>T non_coding_transcript_exon_variant 0.88
rrs 1472338 n.493A>C non_coding_transcript_exon_variant 0.88
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.89
rrs 1472349 n.504A>C non_coding_transcript_exon_variant 0.9
rrs 1472374 n.529T>G non_coding_transcript_exon_variant 0.9
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.9
rrs 1472382 n.537G>T non_coding_transcript_exon_variant 0.9
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.9
rrs 1472412 n.567A>C non_coding_transcript_exon_variant 0.88
rrs 1472415 n.570T>A non_coding_transcript_exon_variant 1.0
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 1.0
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 1.0
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 1.0
rrs 1472715 n.870C>A non_coding_transcript_exon_variant 1.0
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 1.0
rrs 1472770 n.925C>T non_coding_transcript_exon_variant 1.0
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 1472803 n.958T>A non_coding_transcript_exon_variant 1.0
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.97
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472826 n.981G>C non_coding_transcript_exon_variant 1.0
rrs 1473162 n.1317C>G non_coding_transcript_exon_variant 0.67
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.67
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.67
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.67
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.75
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.75
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 1.0
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 1.0
rrs 1473223 n.1378G>A non_coding_transcript_exon_variant 1.0
rrl 1475790 n.2133C>A 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 0.94
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.94
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.83
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.75
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.75
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.83
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 1.0
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.98
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.98
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.98
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.99
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.99
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.99
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.99
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.99
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.99
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.99
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 1.0
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 1476470 n.2813C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rrl 1476491 n.2834T>C non_coding_transcript_exon_variant 1.0
rrl 1476501 n.2844C>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
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 1.0
katG 2154188 p.Pro642Ser missense_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
clpC1 4039586 c.1119G>C synonymous_variant 1.0
aftB 4268188 p.Gly217Cys missense_variant 1.0