TB-Profiler result

Run: ERR4772218
Summary

Run ID: ERR4772218

Sample name:

Date: 01-04-2023 06:45:38

Number of reads: 1248542

Percentage reads mapped: 85.79

Strain: La1.2

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
La1 M.bovis None None 1.0
La1.2 M.bovis None 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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7821 c.520C>T synonymous_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 761152 p.Leu449Gln missense_variant 0.35
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777141 p.Val447Gly missense_variant 0.12
mmpR5 779176 p.Ser63Cys missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
embR 1417294 c.54A>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.25
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.25
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.31
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.25
rrs 1472659 n.814G>A non_coding_transcript_exon_variant 0.25
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.25
rrs 1472669 n.824_825insTAG non_coding_transcript_exon_variant 0.25
rrs 1472677 n.832C>G non_coding_transcript_exon_variant 0.25
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.27
rrs 1472679 n.834_835insAC non_coding_transcript_exon_variant 0.33
rrs 1472684 n.841_846delGATCCG non_coding_transcript_exon_variant 0.38
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.44
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.57
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.57
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.67
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.67
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.67
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.67
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.62
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.62
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.45
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.45
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.33
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.3
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.23
rrs 1472953 n.1109_1112delTCTC non_coding_transcript_exon_variant 0.4
rrs 1472959 n.1114_1115insTTTA non_coding_transcript_exon_variant 0.36
rrs 1472971 n.1126G>T non_coding_transcript_exon_variant 0.3
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.45
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.36
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.36
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.4
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.36
rrs 1472991 n.1146G>A non_coding_transcript_exon_variant 0.36
rrs 1472992 n.1147A>T non_coding_transcript_exon_variant 0.36
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.36
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.36
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.33
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.33
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.33
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.4
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.3
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.29
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.29
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.25
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.42
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.13
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.4
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.47
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.6
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.53
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.53
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.42
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.42
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.42
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.44
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.36
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.46
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.15
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.36
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.25
rrl 1474927 n.1271delC non_coding_transcript_exon_variant 0.17
rrl 1474931 n.1274G>A non_coding_transcript_exon_variant 0.17
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.2
rrl 1475822 n.2165A>G non_coding_transcript_exon_variant 0.17
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.4
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.4
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.4
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.57
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.57
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.4
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.67
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.71
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.75
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.85
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.73
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.73
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.73
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.72
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.74
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.79
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.8
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.71
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.44
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.38
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.38
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.38
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.38
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.38
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.38
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.38
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.33
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.38
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.38
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.38
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.38
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.33
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.33
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.33
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.33
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.29
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.29
fabG1 1673795 p.Val119Glu missense_variant 0.15
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102106 p.Gly313Arg missense_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155191 c.921A>C synonymous_variant 0.18
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
katG 2156236 c.-126delA upstream_gene_variant 0.12
katG 2156465 c.-354C>T upstream_gene_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
PPE35 2169063 p.Met517Arg missense_variant 0.25
PPE35 2169427 p.Pro396Thr missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.35
PPE35 2170053 p.Thr187Ser missense_variant 0.39
Rv1979c 2222204 p.Phe321Leu missense_variant 0.15
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518561 c.447T>A synonymous_variant 0.14
ribD 2987024 p.Met62Ile missense_variant 0.22
Rv2752c 3065888 p.Val102Ile missense_variant 1.0
thyX 3067786 p.Thr54Ala missense_variant 1.0
thyA 3074174 p.Ser100Thr missense_variant 0.12
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
fbiD 3339154 p.Ile13Leu missense_variant 1.0
Rv3083 3448745 p.Ile81Ser missense_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473891 c.-116A>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568618 c.61delC frameshift_variant 0.14
fbiA 3641441 p.Gly300Glu missense_variant 0.12
rpoA 3877680 c.828G>A synonymous_variant 0.15
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 0.89
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4246944 p.Gln144Arg missense_variant 0.12
embB 4247028 p.Leu172Arg missense_variant 0.18
embB 4247173 c.660G>A synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247771 p.Glu420Gln missense_variant 0.15
aftB 4267858 p.Ile327Val missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407743 p.Arg154Trp missense_variant 1.0
gid 4407919 p.Leu95Pro missense_variant 0.25