TB-Profiler result

Run: SRR13861640
Summary

Run ID: SRR13861640

Sample name:

Date: 03-04-2023 09:36:57

Number of reads: 1042629

Percentage reads mapped: 52.18

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 7346 p.Ile15Met missense_variant 1.0
gyrA 8335 p.Met345Arg missense_variant 1.0
gyrA 9639 p.Gly780Arg missense_variant 1.0
fgd1 491505 c.723G>A synonymous_variant 1.0
mshA 576310 p.Ile321Met missense_variant 1.0
mmpL5 775981 p.Leu834Val missense_variant 1.0
mmpL5 776732 c.1749C>T synonymous_variant 1.0
mmpL5 777942 p.Pro180Leu missense_variant 1.0
fbiC 1303422 c.492A>G synonymous_variant 1.0
Rv1258c 1406592 p.Tyr250Cys missense_variant 1.0
embR 1416737 p.Arg204Gln missense_variant 1.0
rrl 1475277 n.1620G>C non_coding_transcript_exon_variant 1.0
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.24
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.28
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.28
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.29
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.28
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.33
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.33
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.33
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.33
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.35
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.33
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.33
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.35
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.35
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.3
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.31
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.26
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.26
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.25
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.25
rpsA 1834091 p.Val184Met missense_variant 1.0
tlyA 1918473 c.534T>A synonymous_variant 1.0
Rv1979c 2221849 p.Leu439Gln missense_variant 1.0
Rv1979c 2222231 p.Met312Leu missense_variant 1.0
Rv1979c 2222710 p.Asn152Ile missense_variant 1.0
eis 2714723 p.Cys204Gly missense_variant 1.0
folC 2746975 p.Asp208Glu missense_variant 1.0
pepQ 2860233 c.186T>G synonymous_variant 1.0
thyA 3073781 p.Leu231Ile missense_variant 1.0
Rv3083 3448420 c.-84_-83insT upstream_gene_variant 1.0
whiB7 3568689 c.-11delT upstream_gene_variant 1.0
embC 4240494 p.Gly211Ala missense_variant 1.0
embC 4241732 p.Ala624Pro missense_variant 0.98
embA 4245672 p.Gly814Arg missense_variant 1.0
embB 4247458 p.Tyr315* stop_gained 1.0
aftB 4268265 p.Leu191Gln missense_variant 1.0