TB-Profiler result

Run: ERR4769478
Summary

Run ID: ERR4769478

Sample name:

Date: 01-04-2023 06:42:04

Number of reads: 970056

Percentage reads mapped: 51.76

Strain: La1.2

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
La1 M.bovis None None 1.0
La1.2 M.bovis None None 0.95
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 0.92
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 0.97
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
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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.23
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.23
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.24
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.24
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.35
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.35
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.43
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.61
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.62
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.64
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.63
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.65
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.64
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.63
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.62
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.61
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.61
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.56
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.56
rrs 1472253 n.408G>C non_coding_transcript_exon_variant 0.56
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.56
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.43
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.16
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.11
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.21
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.42
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.57
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.55
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.55
rrs 1472553 n.708C>T non_coding_transcript_exon_variant 0.54
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.55
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.55
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.56
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.56
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.56
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.56
rrs 1472582 n.737G>T non_coding_transcript_exon_variant 0.56
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.56
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.6
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.69
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.8
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.86
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.84
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.84
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.84
rrs 1472672 n.829_838delTTCCTTCCTT non_coding_transcript_exon_variant 0.84
rrs 1472686 n.842_843insGACCA non_coding_transcript_exon_variant 0.82
rrs 1472690 n.845C>G non_coding_transcript_exon_variant 0.83
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.83
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.84
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.83
rrs 1472733 n.888G>T non_coding_transcript_exon_variant 0.83
rrs 1472734 n.889C>A non_coding_transcript_exon_variant 0.83
rrs 1472741 n.896G>T non_coding_transcript_exon_variant 0.83
rrs 1472742 n.897C>A non_coding_transcript_exon_variant 0.83
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.83
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.74
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.61
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.48
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.48
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.43
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.44
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.49
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.5
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.53
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.53
rrs 1472967 n.1122G>T non_coding_transcript_exon_variant 0.51
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.51
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.48
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.48
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.48
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.47
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.48
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.48
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.47
rrs 1473001 n.1156G>A non_coding_transcript_exon_variant 0.44
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.44
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.45
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.44
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.44
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.48
rrs 1473047 n.1202C>T non_coding_transcript_exon_variant 0.53
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.46
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.24
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.13
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.18
rrs 1473281 n.1436C>G non_coding_transcript_exon_variant 0.1
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.12
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.47
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.47
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.5
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.81
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.85
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.86
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.89
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.88
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.88
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.88
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.89
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.89
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.9
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.86
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.84
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.79
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.77
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.77
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.76
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.74
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.74
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.73
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.72
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.71
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.71
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.71
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.68
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.66
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.64
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.58
rrl 1476586 n.2929C>T non_coding_transcript_exon_variant 0.58
rrl 1476595 n.2938C>T non_coding_transcript_exon_variant 0.5
rrl 1476602 n.2945G>A non_coding_transcript_exon_variant 0.38
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.27
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102106 p.Gly313Arg missense_variant 0.95
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
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
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
Rv2752c 3065888 p.Val102Ile missense_variant 1.0
thyX 3067786 p.Thr54Ala missense_variant 0.97
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 0.94
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
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
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 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247173 c.660G>A synonymous_variant 0.97
embB 4247646 p.Glu378Ala missense_variant 1.0
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