TB-Profiler result

Run: SRR13861456
Summary

Run ID: SRR13861456

Sample name:

Date: 03-04-2023 09:32:21

Number of reads: 1288037

Percentage reads mapped: 21.49

Strain: lineage4.9

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 0.98
rpoB 761129 c.1323G>C synonymous_variant 0.11
rpoB 761133 p.Leu443Met missense_variant 0.11
rpoB 761165 c.1359G>C synonymous_variant 0.12
rpoB 761204 c.1398C>T synonymous_variant 0.12
rpoC 764404 c.1035C>T synonymous_variant 0.13
rpoC 764428 c.1059G>T synonymous_variant 0.13
rpoC 764441 p.Ile358Leu missense_variant 0.13
rpoC 764446 c.1077T>C synonymous_variant 0.13
rpoC 764461 p.Glu364Asp missense_variant 0.13
rpoC 764470 c.1101C>G synonymous_variant 0.13
rpoC 764471 p.Asn368His missense_variant 0.13
rpoC 764479 c.1110G>A synonymous_variant 0.12
rpoC 764503 c.1134G>C synonymous_variant 0.12
rpoC 764509 c.1140G>C synonymous_variant 0.13
rpoC 764513 p.Phe382Leu missense_variant 0.13
rpoC 764521 c.1152T>C synonymous_variant 0.13
mmpL5 776374 p.Arg703Cys missense_variant 1.0
mmpR5 779126 p.Cys46Phe missense_variant 1.0
rplC 801447 p.Lys213Asn missense_variant 0.98
fbiC 1303004 p.Ala25Glu missense_variant 1.0
fbiC 1303171 p.Arg81Trp missense_variant 1.0
fbiC 1303517 p.Met196Thr missense_variant 0.97
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.24
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.23
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.23
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.23
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.23
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.23
rrs 1472971 n.1126G>C non_coding_transcript_exon_variant 0.24
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.26
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.25
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.25
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.25
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.25
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.27
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.28
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.26
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.26
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.28
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.18
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.19
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.49
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.5
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.52
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.52
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.54
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.61
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.62
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.62
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.62
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.62
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.59
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.6
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.6
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.59
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.61
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.6
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.58
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.58
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.56
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.57
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.32
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.13
rpsA 1834640 p.Glu367* stop_gained 0.93
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 0.98
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
clpC1 4039682 c.1023C>G synonymous_variant 0.11
embA 4244641 p.Val470Gly missense_variant 1.0
embA 4245197 c.1965C>T synonymous_variant 0.93
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