TB-Profiler result

Run: SRR6896545
Summary

Run ID: SRR6896545

Sample name:

Date: 04-04-2023 18:09:23

Number of reads: 34071

Percentage reads mapped: 77.13

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 0.92
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 1472644 n.799C>T non_coding_transcript_exon_variant 0.4 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 6140 p.Val301Leu missense_variant 1.0
gyrA 6307 c.-995T>C upstream_gene_variant 0.4
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760774 p.Thr323Lys missense_variant 0.67
rpoC 762920 c.-450C>T upstream_gene_variant 0.4
rpoC 762926 c.-444C>G upstream_gene_variant 0.4
rpoC 762929 c.-441G>C upstream_gene_variant 0.4
rpoC 762947 c.-423C>G upstream_gene_variant 0.5
rpoC 762971 c.-399G>C upstream_gene_variant 0.4
rpoC 762980 c.-390T>A upstream_gene_variant 0.4
rpoC 764695 c.1326T>C synonymous_variant 1.0
rpoC 764706 p.Leu446Gln missense_variant 1.0
rpoC 764746 c.1377G>T synonymous_variant 1.0
rpoC 764749 c.1380G>C synonymous_variant 1.0
rpoC 764758 c.1389C>G synonymous_variant 1.0
rpoC 764764 c.1395T>C synonymous_variant 1.0
rpoC 764780 c.1411_1412delAGinsTC synonymous_variant 1.0
rpoC 764804 p.Gln479Phe missense_variant 1.0
rpoC 764809 c.1440C>T synonymous_variant 1.0
rpoC 764812 c.1443C>G synonymous_variant 1.0
rpoC 764815 c.1446A>G synonymous_variant 1.0
rpoC 764818 c.1449G>C synonymous_variant 1.0
rpoC 764824 c.1455T>C synonymous_variant 1.0
rpoC 764833 c.1464A>G synonymous_variant 1.0
rpoC 764843 p.Ala492Thr missense_variant 1.0
rpoC 764857 c.1488G>C synonymous_variant 1.0
rpoC 764858 c.1489T>C synonymous_variant 1.0
rplC 800888 p.Thr27Asn missense_variant 0.29
Rv1258c 1407155 c.186C>A synonymous_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.4
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.4
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.5
rrs 1472674 n.829T>A non_coding_transcript_exon_variant 0.5
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.5
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.5
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.5
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.5
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.5
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.5
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.4
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.4
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.5
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.67
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.67
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.67
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.5
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.5
rrs 1473022 n.1177G>A non_coding_transcript_exon_variant 0.5
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.5
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.5
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.5
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.5
rrs 1473089 n.1244A>T non_coding_transcript_exon_variant 0.5
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.5
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.5
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.5
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.5
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.5
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.5
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.5
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.5
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.5
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.29
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.29
rrl 1474275 n.618T>A non_coding_transcript_exon_variant 0.29
rrl 1474280 n.623C>T non_coding_transcript_exon_variant 0.33
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.33
rrl 1474291 n.635_649delTTCCTCTCCGGAGGA non_coding_transcript_exon_variant 0.4
rrl 1474308 n.651G>T non_coding_transcript_exon_variant 0.33
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.33
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.33
rrl 1474317 n.660G>A non_coding_transcript_exon_variant 0.33
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.4
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.4
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.4
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.5
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.5
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.5
rrl 1474381 n.724T>A non_coding_transcript_exon_variant 0.67
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.67
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.5
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.5
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.5
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.5
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.4
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.4
rrl 1474662 n.1005C>A non_coding_transcript_exon_variant 0.5
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.62
rrl 1474688 n.1031G>T non_coding_transcript_exon_variant 0.55
rrl 1474710 n.1053T>G non_coding_transcript_exon_variant 0.6
rrl 1474711 n.1054_1055insAA non_coding_transcript_exon_variant 0.6
rrl 1474714 n.1058delT non_coding_transcript_exon_variant 0.55
rrl 1474717 n.1060A>G non_coding_transcript_exon_variant 0.55
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.54
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.54
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.54
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.54
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.58
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.5
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.5
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.5
rrl 1474784 n.1127C>T non_coding_transcript_exon_variant 0.5
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.54
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.4
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.4
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.4
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.4
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.3
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.3
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.3
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.67
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.6
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.6
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.75
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.5
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.5
rpsA 1833668 p.Ile43Val missense_variant 0.5
rpsA 1833676 c.135A>G synonymous_variant 0.5
rpsA 1833685 c.144G>C synonymous_variant 0.5
rpsA 1833694 c.153G>C synonymous_variant 0.5
rpsA 1833697 c.156C>G synonymous_variant 0.5
rpsA 1833721 c.180A>G synonymous_variant 0.5
rpsA 1833727 c.186G>C synonymous_variant 0.5
rpsA 1833733 c.192C>G synonymous_variant 0.5
rpsA 1833734 p.Ala65Ser missense_variant 0.5
rpsA 1833742 c.201A>G synonymous_variant 0.5
rpsA 1833763 c.222C>G synonymous_variant 0.29
rpsA 1833769 c.228C>G synonymous_variant 0.33
rpsA 1833770 p.Asn77Asp missense_variant 0.33
rpsA 1833781 c.240T>G synonymous_variant 0.33
rpsA 1833782 p.Ser81Ala missense_variant 0.33
rpsA 1833787 c.246C>G synonymous_variant 0.33
rpsA 1833790 c.249T>C synonymous_variant 0.33
rpsA 1833794 p.Glu85Thr missense_variant 0.33
rpsA 1833802 c.261A>G synonymous_variant 0.33
rpsA 1833811 c.270G>C synonymous_variant 0.33
rpsA 1833829 c.288A>G synonymous_variant 0.33
rpsA 1833835 c.294C>T synonymous_variant 0.33
rpsA 1833838 c.297G>C synonymous_variant 0.33
rpsA 1833841 c.300C>G synonymous_variant 0.33
rpsA 1833850 c.309C>G synonymous_variant 0.33
rpsA 1833856 c.315A>G synonymous_variant 0.33
rpsA 1833862 c.321G>C synonymous_variant 0.33
rpsA 1834261 c.720A>G synonymous_variant 0.5
rpsA 1834264 c.723G>C synonymous_variant 0.5
rpsA 1834294 c.753G>C synonymous_variant 0.67
rpsA 1834298 p.Gln253Glu missense_variant 0.67
rpsA 1834303 c.762T>G synonymous_variant 0.67
rpsA 1834306 c.765T>C synonymous_variant 0.67
rpsA 1834307 p.Asp256Gln missense_variant 0.67
rpsA 1834327 c.786G>C synonymous_variant 0.57
rpsA 1834333 p.Asp264Glu missense_variant 0.57
rpsA 1834336 c.795C>G synonymous_variant 0.57
rpsA 1834348 c.807T>C synonymous_variant 0.57
rpsA 1834354 c.813G>T synonymous_variant 0.5
rpsA 1834357 c.816T>C synonymous_variant 0.5
rpsA 1834360 c.819G>C synonymous_variant 0.5
rpsA 1834361 c.820T>C synonymous_variant 0.38
rpsA 1834366 c.825A>G synonymous_variant 0.57
rpsA 1834369 c.828C>G synonymous_variant 0.57
rpsA 1834378 c.837T>C synonymous_variant 0.57
rpsA 1834384 c.843A>G synonymous_variant 0.57
rpsA 1834395 p.Arg285Gln missense_variant 0.57
rpsA 1834398 p.His286Leu missense_variant 0.57
rpsA 1834411 c.870T>C synonymous_variant 0.57
rpsA 1834417 c.876G>C synonymous_variant 0.57
rpsA 1834418 p.Ile293Leu missense_variant 0.57
rpsA 1834423 c.882G>C synonymous_variant 0.57
rpsA 1834427 p.Ile296Val missense_variant 0.57
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.5
rpsA 1834456 c.915T>G synonymous_variant 0.5
rpsA 1834468 c.927A>G synonymous_variant 0.5
rpsA 1834480 c.939C>G synonymous_variant 0.5
rpsA 1834486 p.Glu315Asp missense_variant 0.5
rpsA 1834489 c.948T>C synonymous_variant 0.6
rpsA 1834501 c.960G>C synonymous_variant 0.5
rpsA 1834513 c.972C>G synonymous_variant 0.4
katG 2154128 p.Leu662Ile missense_variant 1.0
katG 2154183 c.1929G>A synonymous_variant 1.0
katG 2156043 c.69G>A synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289025 p.Val73Phe missense_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0