TB-Profiler result

Run: SRR13861478

Summary

Run ID: SRR13861478

Sample name:

Date: 03-04-2023 09:32:45

Number of reads: 3822074

Percentage reads mapped: 76.52

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
gyrB 5258 p.Lys7* stop_gained 1.0
gyrB 7122 c.1883_1884insA frameshift_variant 1.0
mmpL5 776374 p.Arg703Cys missense_variant 1.0
mmpR5 779126 p.Cys46Phe missense_variant 1.0
rplC 801447 p.Lys213Asn missense_variant 1.0
fbiC 1303004 p.Ala25Glu missense_variant 1.0
fbiC 1303171 p.Arg81Trp missense_variant 1.0
fbiC 1303517 p.Met196Thr missense_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.11
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.11
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.11
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.11
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.11
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.13
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.12
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.12
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.12
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.12
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.12
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.12
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.13
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.13
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.23
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.3
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.33
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.31
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.29
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.29
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.19
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.29
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.3
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.3
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.32
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.33
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.25
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.14
rpsA 1834640 p.Glu367* stop_gained 1.0
ndh 2103004 c.39T>G synonymous_variant 1.0
PPE35 2170453 p.Gly54Ser missense_variant 1.0
Rv1979c 2223326 c.-162C>T upstream_gene_variant 1.0
pncA 2288748 p.Ala165Asp missense_variant 1.0
kasA 2518474 p.Glu120Asp missense_variant 1.0
thyX 3067529 c.417C>G synonymous_variant 1.0
thyA 3073764 c.708T>C synonymous_variant 1.0
thyA 3073862 p.Gly204Ser missense_variant 1.0
thyA 3073963 p.Leu170Gln missense_variant 0.99
fbiD 3339357 c.240G>T synonymous_variant 1.0
Rv3083 3448352 c.-152G>C upstream_gene_variant 1.0
Rv3083 3449624 p.Lys374Met missense_variant 1.0
Rv3083 3449919 c.1416C>A synonymous_variant 1.0
fbiB 3642227 p.Gln231His missense_variant 1.0
fbiB 3642581 c.1047A>C synonymous_variant 1.0
embA 4244641 p.Val470Gly missense_variant 1.0
embA 4245197 c.1965C>T synonymous_variant 0.99
embB 4246641 p.Ala43Glu missense_variant 1.0
embB 4247233 p.Asp240Glu missense_variant 1.0
ethA 4327035 p.Tyr147Asp missense_variant 1.0
ethR 4327923 p.Gln125His missense_variant 1.0