TB-Profiler result

Run: SRR19303788
Summary

Run ID: SRR19303788

Sample name:

Date: 03-04-2023 21:06:38

Number of reads: 1197183

Percentage reads mapped: 40.89

Strain: lineage4.8

Drug-resistance: Sensitive

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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 490756 c.-27T>G upstream_gene_variant 0.23
fgd1 491444 p.Ser221Phe missense_variant 0.1
mshA 576482 p.Val379Leu missense_variant 0.15
rpoC 764348 p.Met327Leu missense_variant 0.1
rpoC 764355 p.Gln329Pro missense_variant 0.12
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.13
rpoC 764410 c.1041G>C synonymous_variant 0.14
rpoC 764425 c.1056C>T synonymous_variant 0.13
rpoC 764428 c.1059G>T synonymous_variant 0.15
rpoC 764434 c.1065A>G synonymous_variant 0.12
rpoC 764435 c.1066A>C synonymous_variant 0.13
rpoC 764443 p.Ile358Met missense_variant 0.13
rpoC 764446 p.Asp359Glu missense_variant 0.12
rpoC 764450 p.Gly361Arg missense_variant 0.13
rpoC 764461 p.Glu364Asp missense_variant 0.16
rpoC 764468 p.Val367Ile missense_variant 0.14
rpoC 764471 p.Asn368Arg missense_variant 0.14
rpoC 764479 c.1110G>A synonymous_variant 0.15
rpoC 764485 c.1116G>C synonymous_variant 0.16
rpoC 764498 p.Ser377Ala missense_variant 0.27
rpoC 764521 c.1152T>C synonymous_variant 0.33
rpoC 764536 c.1167G>C synonymous_variant 0.32
rpoC 764537 p.Pro390Val missense_variant 0.37
rpoC 764540 p.Val391Ile missense_variant 0.36
rpoC 764548 c.1179G>C synonymous_variant 0.34
rpoC 764549 p.Pro394Ala missense_variant 0.34
rpoC 764552 p.Gly395Asn missense_variant 0.34
rpoC 764557 p.Asn396Lys missense_variant 0.34
rpoC 764566 c.1197C>G synonymous_variant 0.38
rpoC 764575 c.1206T>C synonymous_variant 0.35
rpoC 764576 p.Ser403Ala missense_variant 0.35
rpoC 764581 c.1212T>C synonymous_variant 0.35
rpoC 764582 p.Leu405Met missense_variant 0.37
rpoC 764605 c.1236G>C synonymous_variant 0.44
rpoC 764611 c.1242G>C synonymous_variant 0.44
rpoC 764629 c.1260G>A synonymous_variant 0.42
rpoC 764632 c.1263T>C synonymous_variant 0.41
rpoC 764641 c.1272C>T synonymous_variant 0.31
rpoC 764644 c.1275G>C synonymous_variant 0.24
rpoC 764650 c.1281G>T synonymous_variant 0.24
rpoC 764656 c.1287C>T synonymous_variant 0.23
rpoC 764671 c.1302G>C synonymous_variant 0.17
rpoC 764672 p.Gln435Glu missense_variant 0.17
rpoC 764677 c.1308C>G synonymous_variant 0.17
rpoC 764686 c.1317C>T synonymous_variant 0.15
rpoC 764695 c.1326T>C synonymous_variant 0.14
rpoC 764701 c.1332C>G synonymous_variant 0.15
rpoC 764705 p.Leu446Lys missense_variant 0.14
rpoC 764716 c.1347G>C synonymous_variant 0.15
rpoC 764719 c.1350G>A synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.14
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.15
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474684 n.1027T>A non_coding_transcript_exon_variant 0.17
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.12
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.13
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.13
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.11
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.11
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.18
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.17
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.17
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.17
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.18
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.18
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.18
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.18
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.15
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.15
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.16
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.14
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 0.27
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.16
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.14
rrl 1476356 n.2699C>G non_coding_transcript_exon_variant 0.36
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.39
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.47
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.39
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.11
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.47
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.58
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.11
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 0.46
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.47
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.44
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.54
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.53
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.52
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.52
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.48
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.5
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.47
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.28
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.25
ald 3087818 p.Cys333Trp missense_variant 0.17
fbiD 3339734 p.Ala206Gly missense_variant 0.86
fbiD 3339746 p.Ala210Gly missense_variant 0.5
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
embC 4240411 c.549G>C synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.23
embB 4246584 p.Arg24Pro missense_variant 0.5
whiB6 4338205 p.Val106Gly missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0