TB-Profiler result

Run: SRR13861719
Summary

Run ID: SRR13861719

Sample name:

Date: 03-04-2023 09:38:52

Number of reads: 694574

Percentage reads mapped: 34.76

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 759613 c.-194C>A upstream_gene_variant 1.0
rpoB 759854 p.Ser16Arg missense_variant 1.0
rpoC 765119 p.Gly584Arg missense_variant 1.0
rpoC 766845 p.Arg1159His missense_variant 1.0
mmpL5 776280 p.Arg734His missense_variant 1.0
mmpR5 778208 c.-782C>G upstream_gene_variant 1.0
fbiC 1305195 c.2265T>G synonymous_variant 1.0
Rv1258c 1406120 c.1221C>T synonymous_variant 1.0
embR 1417526 c.-180delA upstream_gene_variant 1.0
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.19
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.19
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.2
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.2
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.2
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.21
rrs 1472971 n.1126G>C non_coding_transcript_exon_variant 0.22
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.19
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.19
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.19
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.19
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.19
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.19
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.19
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.18
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.18
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.16
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.16
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.16
rrl 1473960 n.303T>G non_coding_transcript_exon_variant 1.0
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.49
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.6
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.59
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.59
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.59
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.6
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.59
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.58
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.58
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.58
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.57
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.57
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.54
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.55
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.53
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.53
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.51
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.5
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.51
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.52
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
rpsA 1833623 c.82_83insG frameshift_variant 1.0
tlyA 1918515 c.576C>T synonymous_variant 1.0
tlyA 1918620 c.681C>A synonymous_variant 1.0
katG 2155055 p.Tyr353Asn missense_variant 1.0
PPE35 2169626 c.987C>T synonymous_variant 1.0
eis 2714776 p.Val186Glu missense_variant 1.0
ahpC 2726084 c.-109C>A upstream_gene_variant 0.95
Rv2752c 3065052 p.Glu380Asp missense_variant 1.0
Rv2752c 3065097 c.1095C>T synonymous_variant 1.0
thyA 3073902 c.570C>G synonymous_variant 1.0
panD 4044175 p.Ala36Asp missense_variant 1.0
embC 4240583 p.Thr241Ala missense_variant 1.0
whiB6 4338609 c.-88T>G upstream_gene_variant 1.0
gid 4407696 c.507C>T synonymous_variant 1.0