TB-Profiler result

Run: ERR7737918
Summary

Run ID: ERR7737918

Sample name:

Date: 02-04-2023 05:35:10

Number of reads: 2263929

Percentage reads mapped: 75.29

Strain: lineage4.2.2.1

Drug-resistance: MDR-TB

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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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR None 1.0
lineage4.2.2.1 Euro-American LAM7-TUR 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288961 p.Phe94Ser missense_variant 1.0 pyrazinamide
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
gid 4408100 c.102delG frameshift_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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576077 c.730C>T synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.31
rpoC 764844 p.Ala492Val missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.22
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.22
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.26
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.32
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.32
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.32
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.42
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.47
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.47
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.48
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.48
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.5
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.53
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.51
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.39
rrs 1472253 n.408G>C non_coding_transcript_exon_variant 0.38
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.37
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.26
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.22
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.27
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.35
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.37
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.4
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.43
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.43
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.43
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.43
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.42
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.4
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.42
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.43
rrs 1472606 n.761C>T non_coding_transcript_exon_variant 0.46
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.32
rrs 1472645 n.800G>A non_coding_transcript_exon_variant 0.55
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.48
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.48
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.48
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.42
rrs 1472672 n.828_838delTTTCCTTCCTT non_coding_transcript_exon_variant 0.49
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.41
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.45
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.46
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.46
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.44
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.45
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.46
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.46
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.46
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.37
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.17
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.15
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.14
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.4
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.67
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.67
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.67
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.48
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.63
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.63
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.64
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.64
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.65
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.62
rrs 1473054 n.1209C>T non_coding_transcript_exon_variant 0.55
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.49
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.41
rrs 1473083 n.1238G>A non_coding_transcript_exon_variant 0.15
rrl 1475144 n.1487G>C non_coding_transcript_exon_variant 0.12
rrl 1475154 n.1497C>A non_coding_transcript_exon_variant 0.12
rrl 1475155 n.1498A>G non_coding_transcript_exon_variant 0.12
rrl 1475163 n.1506T>G non_coding_transcript_exon_variant 0.12
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.32
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.34
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.51
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.55
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.61
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.65
rrl 1475877 n.2220C>T non_coding_transcript_exon_variant 0.65
rrl 1475880 n.2223C>G non_coding_transcript_exon_variant 0.67
rrl 1475881 n.2224T>G non_coding_transcript_exon_variant 0.67
rrl 1475882 n.2225C>G non_coding_transcript_exon_variant 0.68
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.68
rrl 1475895 n.2238C>A non_coding_transcript_exon_variant 0.68
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.68
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.67
rrl 1475914 n.2257C>T non_coding_transcript_exon_variant 0.68
rrl 1475916 n.2259C>A non_coding_transcript_exon_variant 0.68
rrl 1475920 n.2263G>C non_coding_transcript_exon_variant 0.7
rrl 1475924 n.2267A>G non_coding_transcript_exon_variant 0.7
rrl 1475933 n.2276C>G non_coding_transcript_exon_variant 0.68
rrl 1475939 n.2282G>C non_coding_transcript_exon_variant 0.66
rrl 1475944 n.2287G>A non_coding_transcript_exon_variant 0.62
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.53
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.21
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 0.15
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.25
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.34
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.35
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.26
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.26
rrl 1476197 n.2540T>C non_coding_transcript_exon_variant 0.26
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.26
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.26
rrl 1476209 n.2552A>G non_coding_transcript_exon_variant 0.22
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.22
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.21
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.21
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.22
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.29
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.3
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.39
rrl 1476242 n.2585C>T non_coding_transcript_exon_variant 0.51
rrl 1476251 n.2594T>A non_coding_transcript_exon_variant 0.53
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.56
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.57
rrl 1476265 n.2608G>A non_coding_transcript_exon_variant 0.61
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.62
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.56
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.56
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.56
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.56
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.56
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.63
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.63
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.61
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.67
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.73
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.73
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.75
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.74
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.74
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.71
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.7
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.7
rrl 1476427 n.2770G>T non_coding_transcript_exon_variant 0.71
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.69
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.69
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.69
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.69
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.63
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.57
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.54
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.49
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.47
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.44
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.44
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.43
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.43
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.43
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.44
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.42
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.4
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.4
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.34
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.23
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.22
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.19
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0