TB-Profiler result

Run: SRR1173074
Summary

Run ID: SRR1173074

Sample name:

Date: 03-04-2023 03:15:55

Number of reads: 71632

Percentage reads mapped: 3.0

Strain: lineage4.9

Drug-resistance: Other

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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 0.97
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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 1.0 streptomycin
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
gid 4407967 p.Leu79Ser missense_variant 1.0 streptomycin
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
ccsA 620374 p.Pro162Thr missense_variant 0.67
rpoB 760849 p.Thr348Met missense_variant 0.67
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 777357 p.Arg375Leu missense_variant 0.67
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.5
rrs 1472128 n.283G>A non_coding_transcript_exon_variant 0.5
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.5
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.5
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.57
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.57
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.57
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.5
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.33
rrs 1472498 n.653C>G non_coding_transcript_exon_variant 0.75
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.95
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.96
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.96
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.98
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.98
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.98
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.98
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.96
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.96
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.96
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.96
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.96
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.94
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.93
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.89
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.6
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.5
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 1.0
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 1.0
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 1.0
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 1.0
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 1.0
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.98
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.98
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.93
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.5
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.43
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.43
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.29
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.5
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.89
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 1.0
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 1.0
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 1.0
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 1.0
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 1.0
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 1.0
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 1.0
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 1.0
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 1.0
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 1.0
rrl 1473778 n.121G>T non_coding_transcript_exon_variant 0.5
rrl 1474839 n.1182C>T non_coding_transcript_exon_variant 0.5
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.5
rrl 1474848 n.1191G>A non_coding_transcript_exon_variant 0.5
rrl 1474862 n.1205C>T non_coding_transcript_exon_variant 0.5
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.5
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.5
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 1.0
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 1.0
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 1.0
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 1.0
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 1.0
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.8
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.8
rrl 1475874 n.2217C>T non_coding_transcript_exon_variant 0.75
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.89
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.91
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.94
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.95
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.96
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.96
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.96
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.96
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 1.0
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 1.0
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 1.0
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 1.0
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 1.0
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156057 p.Gly19Ser missense_variant 0.4
Rv1979c 2221939 p.Arg409Gln missense_variant 1.0
eis 2714181 c.1150_1151delCG frameshift_variant 1.0
eis 2714190 p.Gln381His missense_variant 1.0
eis 2714212 p.Arg374Leu missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3474380 p.Ala125Asp missense_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640721 p.Pro60Gln missense_variant 0.33
aftB 4267560 p.Ala426Asp missense_variant 1.0
aftB 4267621 p.Gly406Cys missense_variant 0.67