TB-Profiler result

Run: SRR13861152
Summary

Run ID: SRR13861152

Sample name:

Date: 03-04-2023 09:24:44

Number of reads: 121119

Percentage reads mapped: 4.04

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) 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
fgd1 491085 c.303T>C synonymous_variant 0.33
mshA 575498 p.Ala51Pro missense_variant 1.0
rpoC 763663 c.294C>A synonymous_variant 1.0
rpoC 763955 p.Lys196Gln missense_variant 1.0
rpoC 764387 c.1018T>C synonymous_variant 0.27
rpoC 764401 c.1032C>T synonymous_variant 0.3
rpoC 764404 c.1035C>T synonymous_variant 0.27
rpoC 764405 c.1036A>C synonymous_variant 0.27
rpoC 764419 c.1050C>T synonymous_variant 0.3
rpoC 764428 c.1059G>T synonymous_variant 0.3
rpoC 764434 c.1065A>G synonymous_variant 0.3
rpoC 764435 c.1066_1068delAGGinsCGC synonymous_variant 0.3
rpoC 764441 p.Ile358Leu missense_variant 0.3
rpoC 764446 c.1077T>C synonymous_variant 0.3
rpoC 764451 p.Gly361Ala missense_variant 0.33
rpoC 764455 c.1086G>T synonymous_variant 0.33
rpoC 764461 p.Glu364Asp missense_variant 0.33
rpoC 764470 c.1101C>G synonymous_variant 0.33
rpoC 764471 p.Asn368Arg missense_variant 0.33
rpoC 764479 c.1110G>A synonymous_variant 0.3
rpoC 764485 c.1116G>C synonymous_variant 0.22
rpoC 764498 p.Ser377Ala missense_variant 0.3
rpoC 764503 c.1134G>C synonymous_variant 0.3
rpoC 764509 c.1140G>C synonymous_variant 0.27
rpoC 764513 p.Phe382Leu missense_variant 0.27
rpoC 764521 c.1152T>C synonymous_variant 0.3
rpoC 765682 p.Asn771Lys missense_variant 0.67
rpoC 765734 c.2365T>C synonymous_variant 0.4
rpoC 765739 c.2370G>C synonymous_variant 0.4
rpoC 766342 c.2973C>A synonymous_variant 1.0
rpsL 781579 p.Leu7Arg missense_variant 1.0
rpsL 781715 c.156T>C synonymous_variant 0.25
rpsL 781728 c.169T>C synonymous_variant 0.22
rplC 800618 c.-191T>C upstream_gene_variant 0.22
rplC 800648 c.-161A>C upstream_gene_variant 0.22
rplC 800654 c.-155T>C upstream_gene_variant 0.22
rplC 800693 c.-116A>G upstream_gene_variant 0.22
rplC 800703 c.-106T>C upstream_gene_variant 0.29
rplC 800715 c.-94A>C upstream_gene_variant 0.29
rplC 800720 c.-89T>C upstream_gene_variant 0.29
rplC 800723 c.-86C>G upstream_gene_variant 0.29
rplC 800738 c.-71T>C upstream_gene_variant 0.33
rplC 800747 c.-62C>G upstream_gene_variant 0.33
rplC 800771 c.-38C>T upstream_gene_variant 0.29
fbiC 1303575 c.645G>C synonymous_variant 0.4
fbiC 1303584 c.654C>G synonymous_variant 0.4
fbiC 1303590 c.660A>G synonymous_variant 0.4
fbiC 1303602 c.672A>G synonymous_variant 0.4
fbiC 1303605 c.675C>G synonymous_variant 0.4
fbiC 1303608 c.678G>A synonymous_variant 0.4
fbiC 1303611 c.681G>C synonymous_variant 0.4
fbiC 1303614 c.684C>T synonymous_variant 0.4
fbiC 1303617 c.687C>G synonymous_variant 0.4
fbiC 1303632 c.702T>G synonymous_variant 0.4
fbiC 1303638 c.708A>G synonymous_variant 0.4
fbiC 1303653 c.723G>C synonymous_variant 0.4
fbiC 1303674 c.744C>G synonymous_variant 0.29
fbiC 1303686 c.756C>G synonymous_variant 0.33
fbiC 1303695 c.765T>C synonymous_variant 0.38
fbiC 1303708 c.778T>C synonymous_variant 0.29
fbiC 1303728 c.798G>A synonymous_variant 0.33
fbiC 1303730 p.Leu267Pro missense_variant 0.33
fbiC 1303732 p.Ser268Ala missense_variant 0.33
fbiC 1303737 c.807G>A synonymous_variant 0.33
fbiC 1303746 c.816T>C synonymous_variant 0.33
fbiC 1303749 c.819G>C synonymous_variant 0.33
fbiC 1303752 c.822A>G synonymous_variant 0.33
fbiC 1303755 c.825T>C synonymous_variant 0.33
fbiC 1303785 c.855G>C synonymous_variant 0.38
fbiC 1303789 p.Ile287Val missense_variant 0.33
fbiC 1303818 c.888C>G synonymous_variant 0.36
fbiC 1303836 c.906G>C synonymous_variant 0.33
fbiC 1303845 c.915C>G synonymous_variant 0.29
fbiC 1303846 p.Phe306Val missense_variant 0.29
fbiC 1303854 c.924T>C synonymous_variant 0.29
fbiC 1303860 c.930A>C synonymous_variant 0.29
fbiC 1303881 c.951G>C synonymous_variant 0.29
fbiC 1303884 c.954T>G synonymous_variant 0.29
fbiC 1303911 c.981G>C synonymous_variant 0.22
fbiC 1303914 c.984C>G synonymous_variant 0.25
fbiC 1303920 c.990C>G synonymous_variant 0.25
fbiC 1303923 c.993C>T synonymous_variant 0.25
fbiC 1303929 c.999G>C synonymous_variant 0.22
fbiC 1303947 c.1017T>C synonymous_variant 0.29
fbiC 1303948 p.Gly340Arg missense_variant 0.29
fbiC 1303969 p.Val347Ile missense_variant 0.33
fbiC 1303973 p.Gly348Ala missense_variant 0.33
fbiC 1303995 c.1065C>T synonymous_variant 0.33
fbiC 1304001 c.1071C>G synonymous_variant 0.29
fbiC 1304008 c.1078T>C synonymous_variant 0.29
fbiC 1304034 c.1104A>G synonymous_variant 0.25
fbiC 1304040 c.1110C>G synonymous_variant 0.22
fbiC 1304046 c.1116C>G synonymous_variant 0.22
fbiC 1304049 c.1119T>G synonymous_variant 0.22
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 1.0
rrs 1472108 n.263C>A non_coding_transcript_exon_variant 1.0
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.75
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.75
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.75
rrs 1472133 n.288G>A non_coding_transcript_exon_variant 0.75
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.75
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.75
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.75
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.75
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.75
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.75
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.75
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.75
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.75
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.75
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.75
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.6
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.6
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.82
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.82
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.82
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.82
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.82
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.82
rrs 1472971 n.1126G>C non_coding_transcript_exon_variant 0.82
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.82
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.82
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.82
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.82
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.73
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.73
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.82
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.82
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.82
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.82
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.78
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.7
rrl 1474164 n.507C>A non_coding_transcript_exon_variant 1.0
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.38
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.87
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.86
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.86
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.86
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.86
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.92
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.92
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.92
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.92
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.92
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.92
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.92
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.91
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.92
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.92
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.93
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.92
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.92
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.91
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.9
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.79
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.56
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.5
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.5
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.5
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.67
inhA 1674315 c.114C>G synonymous_variant 1.0
katG 2154959 c.1153C>A synonymous_variant 1.0
pncA 2290061 c.-820C>T upstream_gene_variant 0.67
kasA 2518621 c.507G>A synonymous_variant 0.5
pepQ 2860252 p.Thr56Ser missense_variant 1.0
Rv2752c 3065651 p.Arg181Gly missense_variant 1.0
thyX 3067781 c.165C>G synonymous_variant 0.18
thyX 3067787 c.159G>A synonymous_variant 0.18
thyX 3067793 c.153T>C synonymous_variant 0.18
thyX 3067799 c.147G>A synonymous_variant 0.18
thyX 3067802 c.144C>G synonymous_variant 0.18
rpoA 3877765 p.Ala248Gly missense_variant 1.0
ddn 3986847 c.4_5insA frameshift_variant 1.0
clpC1 4038596 c.2109A>G synonymous_variant 0.5
clpC1 4038611 c.2094C>T synonymous_variant 0.4
clpC1 4038623 c.2082A>G synonymous_variant 0.4
clpC1 4038640 p.Asp689Asn missense_variant 0.4
clpC1 4038653 c.2052C>T synonymous_variant 0.4
clpC1 4038658 p.Lys683Gln missense_variant 0.4
clpC1 4038661 p.Ser682Thr missense_variant 0.4
clpC1 4038662 c.2043T>C synonymous_variant 0.4
clpC1 4038671 c.2034T>C synonymous_variant 0.4
clpC1 4039769 c.936C>G synonymous_variant 0.33
embB 4247059 c.546C>G synonymous_variant 1.0
embB 4247144 p.Ser211Pro missense_variant 1.0
gid 4408259 c.-57G>C upstream_gene_variant 1.0