TB-Profiler result

Run: SRR12199485
Summary

Run ID: SRR12199485

Sample name:

Date: 03-04-2023 06:43:13

Number of reads: 179900

Percentage reads mapped: 91.3

Strain: lineage2

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
lineage2 East-Asian Beijing RD105 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.18 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
gyrB 5156 c.-84G>A upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8386 p.Ile362Thr missense_variant 0.29
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491661 c.879C>T synonymous_variant 0.15
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 619781 c.-110T>C upstream_gene_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.22
rpoB 760222 p.Gly139Val missense_variant 0.15
rpoB 760445 c.639C>A synonymous_variant 0.13
rpoB 763006 p.Cys1067Tyr missense_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763083 p.Arg1093Ser missense_variant 0.27
rpoC 763501 p.Asp44Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777119 p.His454Gln missense_variant 0.25
mmpL5 777122 c.1359C>T synonymous_variant 0.25
mmpS5 778626 c.279_280insGTGAGCG frameshift_variant 0.4
mmpS5 778630 p.Leu92Phe missense_variant 0.4
mmpS5 778632 c.267_273delGCTCACC frameshift_variant 0.4
mmpR5 779437 p.Val150Ile missense_variant 0.29
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781557 c.-3T>G upstream_gene_variant 0.33
rplC 801024 c.216C>A synonymous_variant 0.33
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406894 c.447C>A synonymous_variant 0.4
embR 1417053 p.Pro99Ser missense_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.19
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.12
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.12
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.12
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.13
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.13
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.13
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.13
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.17
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.14
rrs 1472607 n.762G>C non_coding_transcript_exon_variant 0.18
rrs 1472608 n.763T>A non_coding_transcript_exon_variant 0.17
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.24
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.16
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.22
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.19
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.15
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.4
rrs 1472785 n.940G>T non_coding_transcript_exon_variant 0.16
rrs 1472786 n.941C>G non_coding_transcript_exon_variant 0.21
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.12
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.12
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.16
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.15
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.18
rrl 1474228 n.571T>A non_coding_transcript_exon_variant 0.2
rrl 1475462 n.1809delA non_coding_transcript_exon_variant 0.4
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.14
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.19
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.22
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.22
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.24
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.22
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.18
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.14
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.14
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.17
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.17
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.18
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.22
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.22
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.22
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.22
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.22
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.22
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.22
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.22
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.22
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.22
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.22
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.22
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.22
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.2
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.2
rrl 1476034 n.2377C>G non_coding_transcript_exon_variant 0.2
rrl 1476075 n.2418_2419insGTCA non_coding_transcript_exon_variant 0.14
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.15
rrl 1476087 n.2430C>T non_coding_transcript_exon_variant 0.15
rrl 1476088 n.2431A>G non_coding_transcript_exon_variant 0.22
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.2
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.22
rrl 1476100 n.2443A>G non_coding_transcript_exon_variant 0.22
rrl 1476103 n.2446C>A non_coding_transcript_exon_variant 0.25
rrl 1476105 n.2450delA non_coding_transcript_exon_variant 0.25
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.25
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.22
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.25
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.25
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.17
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.17
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.14
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.11
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.11
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.1
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.15
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.15
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.2
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.2
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.2
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.21
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.19
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.14
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.25
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.16
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.19
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.37
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.34
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.17
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.17
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.16
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.31
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.24
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.13
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.13
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.17
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.15
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.23
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.25
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.18
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.23
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.17
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.14
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.14
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.14
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.14
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.14
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.14
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.14
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.14
rrl 1476581 n.2924G>A non_coding_transcript_exon_variant 0.12
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.13
fabG1 1673296 c.-144T>C upstream_gene_variant 0.18
inhA 1675000 p.Gln267Lys missense_variant 0.25
rpsA 1834084 p.Asn181Lys missense_variant 0.5
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156251 c.-140G>A upstream_gene_variant 0.22
katG 2156508 c.-397G>T upstream_gene_variant 0.29
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.5
PPE35 2167967 c.2646A>C synonymous_variant 0.5
PPE35 2170048 p.Leu189Val missense_variant 0.4
PPE35 2170053 p.Thr187Ser missense_variant 0.4
Rv1979c 2222126 p.Asp347Tyr missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2725931 c.-262T>C upstream_gene_variant 0.29
folC 2746686 p.Ala305Pro missense_variant 1.0
Rv2752c 3065998 p.Arg65His missense_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339123 p.Ser2Arg missense_variant 0.22
Rv3083 3449680 p.Ala393Ser missense_variant 0.2
Rv3083 3449724 p.Cys407* stop_gained 0.2
Rv3083 3449968 c.1468delC frameshift_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568796 c.-117G>T upstream_gene_variant 0.5
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641648 c.114G>A synonymous_variant 0.2
alr 3841386 p.Asn12Ser missense_variant 0.15
alr 3841546 c.-126C>A upstream_gene_variant 0.22
rpoA 3877849 p.Gly220Val missense_variant 0.2
clpC1 4038776 p.Glu643Asp missense_variant 0.22
clpC1 4040010 p.Ala232Arg missense_variant 0.22
clpC1 4040380 c.325T>C synonymous_variant 0.25
embC 4240762 p.Met300Ile missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243136 p.Arg1092Ser missense_variant 1.0
embA 4243380 p.Thr50Pro missense_variant 0.33
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244224 p.Ala331Val missense_variant 0.5
embA 4244347 p.Trp372Leu missense_variant 0.33
embA 4245275 c.2043C>A synonymous_variant 0.2
embB 4247925 p.Arg471Leu missense_variant 0.29
aftB 4267027 p.Arg604Cys missense_variant 0.29
aftB 4267191 p.Gly549Val missense_variant 0.33
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269380 p.Val152Phe missense_variant 0.2
ethA 4327578 c.-105C>T upstream_gene_variant 0.25
whiB6 4338566 c.-45A>G upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0