TB-Profiler result

Run: SRR13861311
Summary

Run ID: SRR13861311

Sample name:

Date: 03-04-2023 09:28:45

Number of reads: 490114

Percentage reads mapped: 16.35

Strain: lineage4.9

Drug-resistance: Other

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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
embR 1416784 p.Ser188Arg missense_variant 1.0 ethambutol
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
fgd1 490771 c.-12T>G upstream_gene_variant 1.0
rpoB 761125 c.1320dupG frameshift_variant 1.0
rpoB 761989 p.Ala728Val missense_variant 1.0
rpoC 763884 p.Ala172Asp missense_variant 1.0
rpoC 764514 p.Phe382Tyr missense_variant 0.95
rpoC 765936 p.Ala856Gly missense_variant 1.0
mmpL5 776303 c.2178G>C synonymous_variant 1.0
fbiC 1303334 p.Gly135Val missense_variant 1.0
embR 1416250 c.1098C>A synonymous_variant 1.0
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.55
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.5
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.5
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.41
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.5
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.5
rrs 1472971 n.1126G>C non_coding_transcript_exon_variant 0.5
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.5
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.46
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.46
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.43
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.46
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.46
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.46
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.48
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.48
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.44
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.25
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.25
rrs 1473281 n.1436C>G non_coding_transcript_exon_variant 0.2
rrl 1474218 n.561T>C non_coding_transcript_exon_variant 1.0
rrl 1475718 n.2061T>G non_coding_transcript_exon_variant 1.0
rrl 1476275 n.2618T>G non_coding_transcript_exon_variant 0.17
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.22
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.22
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.28
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.69
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.73
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.73
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.73
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.73
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.74
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.76
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.79
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.77
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.76
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.84
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.82
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.81
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.81
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.76
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.76
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.73
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.73
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.71
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.69
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.33
fabG1 1673184 c.-256T>C upstream_gene_variant 1.0
rpsA 1833707 p.Gly56Arg missense_variant 1.0
tlyA 1918168 p.Phe77Leu missense_variant 1.0
kasA 2518023 c.-92C>T upstream_gene_variant 1.0
eis 2715279 c.54A>G synonymous_variant 1.0
folC 2747689 c.-91C>T upstream_gene_variant 1.0
fbiD 3339289 p.Ser58Ala missense_variant 1.0
fprA 3474463 p.Ile153Phe missense_variant 1.0
clpC1 4038389 c.2316G>C synonymous_variant 1.0
clpC1 4040326 p.Leu127Val missense_variant 1.0
embC 4241920 p.Asp686Glu missense_variant 1.0
ubiA 4269209 p.Ser209Thr missense_variant 1.0