TB-Profiler result

Run: SRR13861359
Summary

Run ID: SRR13861359

Sample name:

Date: 03-04-2023 09:29:49

Number of reads: 146515

Percentage reads mapped: 7.33

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
gyrA 7018 c.-284G>T upstream_gene_variant 1.0
mshA 576668 c.1322dupA frameshift_variant&stop_gained 1.0
rpoC 765100 c.1731G>C synonymous_variant 1.0
mmpL5 776059 p.Val808Met missense_variant 1.0
fbiC 1304599 p.Ile557Phe missense_variant 1.0
embR 1417348 c.-1A>T upstream_gene_variant 1.0
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.83
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.83
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.83
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.83
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.83
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.83
rrs 1472971 n.1126G>C non_coding_transcript_exon_variant 0.83
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.71
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.71
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.71
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.71
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.71
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.71
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.71
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.71
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.71
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.62
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.4
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.4
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.4
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.4
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.62
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.91
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.9
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.9
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.92
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.93
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.93
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.93
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.93
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.91
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.93
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.95
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.95
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.95
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.95
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.97
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.98
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.92
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.92
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.88
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.88
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.57
rpsA 1833855 p.Lys105Thr missense_variant 1.0
kasA 2518276 p.Trp54* stop_gained 1.0
kasA 2518352 p.Met80Val missense_variant 1.0
eis 2714478 c.855C>A synonymous_variant 1.0
pepQ 2860170 c.248_249insA frameshift_variant 1.0
Rv2752c 3065335 p.Leu286Arg missense_variant 1.0
fbiB 3641019 c.-516G>A upstream_gene_variant 1.0
fbiB 3641941 p.Leu136Gln missense_variant 1.0
embC 4241292 p.Leu477Gln missense_variant 1.0
embC 4242011 p.Leu717Val missense_variant 1.0
embB 4248720 p.Gly736Ala missense_variant 1.0
embB 4249676 p.Arg1055Cys missense_variant 1.0
aftB 4267927 p.Ala304Ser missense_variant 1.0