TB-Profiler result

Run: SRR17567887
Summary

Run ID: SRR17567887

Sample name:

Date: 03-04-2023 18:00:24

Number of reads: 297914

Percentage reads mapped: 7.11

Strain: lineage4.4.1.2

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.2 Euro-American T1 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
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
gyrA 9746 c.2445C>T synonymous_variant 1.0
rpoB 762872 p.Met1022Ile missense_variant 0.37
rpoB 762878 p.Ile1024Met missense_variant 0.43
rpoB 762879 p.Met1025Leu missense_variant 0.43
rpoC 762896 c.-474G>C upstream_gene_variant 0.67
rpoC 762917 c.-453C>G upstream_gene_variant 0.79
rpoC 762923 c.-447C>G upstream_gene_variant 0.74
rpoB 762925 p.Thr1040Ile missense_variant 0.74
rpoC 762929 c.-441G>C upstream_gene_variant 0.74
rpoB 762939 p.Met1045Leu missense_variant 0.72
rpoB 762942 p.Ile1046Val missense_variant 0.74
rpoC 762965 c.-405T>C upstream_gene_variant 0.69
rpoC 762980 c.-390T>C upstream_gene_variant 0.74
rpoC 762989 c.-381G>C upstream_gene_variant 0.7
rpoC 762995 c.-375G>T upstream_gene_variant 0.65
rpoB 763005 p.Cys1067Val missense_variant 0.44
rpoC 763013 c.-357C>G upstream_gene_variant 0.21
rpoB 763014 p.Met1070Leu missense_variant 0.21
rpoB 763017 p.Gln1071Glu missense_variant 0.21
rpoC 763028 c.-342T>C upstream_gene_variant 0.14
rpoC 763031 c.-339T>G upstream_gene_variant 0.14
rpoC 764428 c.1059G>C synonymous_variant 0.33
rpoC 764431 c.1062G>C synonymous_variant 0.31
rpoC 764434 c.1065A>G synonymous_variant 0.31
rpoC 764435 c.1066A>C synonymous_variant 0.29
rpoC 764446 p.Asp359Glu missense_variant 0.29
rpoC 764450 p.Gly361Arg missense_variant 0.27
rpoC 764461 p.Glu364Asp missense_variant 0.33
rpoC 764468 p.Val367Ile missense_variant 0.36
rpoC 764471 p.Asn368Arg missense_variant 0.36
rpoC 764485 c.1116G>C synonymous_variant 0.33
rpoC 764491 c.1122G>T synonymous_variant 0.33
rpoC 764497 c.1128A>G synonymous_variant 0.29
rpoC 764498 p.Ser377Ala missense_variant 0.29
rpoC 764506 c.1137C>T synonymous_variant 0.29
rpoC 764566 c.1197C>G synonymous_variant 0.29
rpoC 764575 c.1206T>C synonymous_variant 0.29
rpoC 764576 p.Ser403Ala missense_variant 0.29
rpoC 764581 c.1212T>C synonymous_variant 0.29
rpoC 764582 p.Leu405Met missense_variant 0.29
rpoC 764587 c.1218C>G synonymous_variant 0.38
rpoC 764605 c.1236G>C synonymous_variant 0.62
rpoC 764611 c.1242G>C synonymous_variant 0.67
rpoC 764632 c.1263T>C synonymous_variant 0.69
rpoC 764650 c.1281G>C synonymous_variant 0.64
rpoC 764672 p.Gln435Glu missense_variant 0.59
rpoC 764677 c.1308C>G synonymous_variant 0.57
rpoC 764695 c.1326T>C synonymous_variant 0.57
rpoC 764701 c.1332C>G synonymous_variant 0.57
rpoC 764705 p.Leu446Lys missense_variant 0.57
rpoC 764716 c.1347G>C synonymous_variant 0.5
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775815 p.Ala889Val missense_variant 0.14
mmpS5 779565 c.-660G>C upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472089 n.244C>T non_coding_transcript_exon_variant 0.4
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.92
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.87
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.87
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.87
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.82
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.8
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.79
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.79
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.79
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.78
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.87
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.85
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.72
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.72
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.72
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.71
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.71
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.68
rrs 1472266 n.421C>A non_coding_transcript_exon_variant 0.75
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.74
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.45
rrs 1472374 n.529T>A non_coding_transcript_exon_variant 0.29
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.29
rrs 1472382 n.537G>T non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.62
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.62
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.62
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.69
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.68
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.68
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.68
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.68
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.68
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.69
rrl 1474770 n.1113G>A non_coding_transcript_exon_variant 0.3
rrl 1474774 n.1117A>T non_coding_transcript_exon_variant 0.25
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.27
rrl 1474778 n.1121C>G non_coding_transcript_exon_variant 0.55
rrl 1474780 n.1123C>A non_coding_transcript_exon_variant 0.27
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.27
rrl 1474825 n.1168G>C non_coding_transcript_exon_variant 0.44
rrl 1474828 n.1171G>C non_coding_transcript_exon_variant 0.44
rrl 1474832 n.1176delG non_coding_transcript_exon_variant 0.44
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.53
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.47
rrl 1474875 n.1218G>A non_coding_transcript_exon_variant 0.44
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.44
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.39
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.17
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.17
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.22
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 0.8
rrl 1476356 n.2699C>G non_coding_transcript_exon_variant 0.86
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.86
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.87
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.88
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 0.89
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.92
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.93
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.93
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.93
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.94
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.93
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.92
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.92
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.93
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.85
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.81
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.57
rrl 1476541 n.2884C>T non_coding_transcript_exon_variant 0.5
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.78
rrl 1476569 n.2912G>A non_coding_transcript_exon_variant 0.88
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.88
rrl 1476584 n.2927C>G non_coding_transcript_exon_variant 0.7
rrl 1476586 n.2929C>G non_coding_transcript_exon_variant 0.7
rrl 1476588 n.2931A>T non_coding_transcript_exon_variant 0.64
rrl 1476595 n.2938C>G non_coding_transcript_exon_variant 0.64
rrl 1476602 n.2945G>C non_coding_transcript_exon_variant 0.64
rrl 1476607 n.2950C>G non_coding_transcript_exon_variant 0.64
rrl 1476608 n.2951C>T non_coding_transcript_exon_variant 0.64
rrl 1476611 n.2954T>A non_coding_transcript_exon_variant 0.64
rrl 1476613 n.2956G>C non_coding_transcript_exon_variant 0.64
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.64
rrl 1476621 n.2964C>T non_coding_transcript_exon_variant 0.64
rrl 1476624 n.2967T>A non_coding_transcript_exon_variant 0.64
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.7
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.7
rrl 1476645 n.2988A>G non_coding_transcript_exon_variant 0.64
rrl 1476664 n.3007T>C non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167770 p.Ser948Ile missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860213 p.Pro69Leu missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474415 p.His137Tyr missense_variant 1.0
Rv3236c 3613070 p.Ala16Val missense_variant 0.18
Rv3236c 3613093 p.Leu8Phe missense_variant 0.2
clpC1 4040045 c.660C>G synonymous_variant 0.29
clpC1 4040066 c.639G>C synonymous_variant 0.29
clpC1 4040090 c.615T>G synonymous_variant 0.25
clpC1 4040093 c.612C>G synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249012 c.2499G>A synonymous_variant 1.0
whiB6 4338382 p.Asp47Val missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0