TB-Profiler result

Run: ERR4769479
Summary

Run ID: ERR4769479

Sample name:

Date: 01-04-2023 06:42:17

Number of reads: 2975313

Percentage reads mapped: 79.53

Strain: La1.3

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
La1.3 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 8285 c.984C>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
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765751 c.2382C>T synonymous_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
rpsL 781402 c.-158A>G upstream_gene_variant 1.0
rplC 800651 c.-158G>A upstream_gene_variant 0.98
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrs 1472089 n.244C>T non_coding_transcript_exon_variant 0.12
rrs 1472094 n.249T>G non_coding_transcript_exon_variant 0.13
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.16
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.16
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.17
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.18
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.3
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.32
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.38
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.38
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.38
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.42
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.42
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.42
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.42
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.42
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.42
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.35
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.36
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.35
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.31
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.31
rrs 1472256 n.411T>G non_coding_transcript_exon_variant 0.31
rrs 1472277 n.432C>A non_coding_transcript_exon_variant 0.16
rrs 1472517 n.672T>C non_coding_transcript_exon_variant 0.24
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.34
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.34
rrs 1472545 n.700A>G non_coding_transcript_exon_variant 0.34
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.34
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.38
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.29
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.36
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.38
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.47
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.44
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.43
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.42
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.3
rrs 1472672 n.828_838delTTTCCTTCCTT non_coding_transcript_exon_variant 0.29
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.31
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.31
rrs 1472700 n.855C>G non_coding_transcript_exon_variant 0.31
rrs 1472705 n.860G>C non_coding_transcript_exon_variant 0.29
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.31
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.31
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.14
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.13
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.16
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.32
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.35
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.35
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.46
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.48
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.47
rrs 1473100 n.1255G>C non_coding_transcript_exon_variant 0.46
rrs 1473109 n.1264T>G non_coding_transcript_exon_variant 0.46
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.45
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.45
rrs 1473115 n.1270G>C non_coding_transcript_exon_variant 0.46
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.46
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.46
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.47
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.47
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.47
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.46
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.41
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.41
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.41
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.42
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.41
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.34
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.23
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.18
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.19
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.18
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.18
rrl 1474797 n.1140_1141insTAAC non_coding_transcript_exon_variant 0.19
rrl 1474800 n.1144_1147delGTGC non_coding_transcript_exon_variant 0.19
rrl 1474812 n.1155G>C non_coding_transcript_exon_variant 0.16
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.16
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.16
rrl 1474830 n.1173A>C non_coding_transcript_exon_variant 0.16
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.16
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.15
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.15
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.15
rrl 1474869 n.1212G>C non_coding_transcript_exon_variant 0.15
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.12
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.11
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.12
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.22
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.29
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.48
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.49
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.46
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.44
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.41
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.41
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.41
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.41
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.41
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.41
rrl 1476307 n.2650A>T non_coding_transcript_exon_variant 0.4
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.41
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.41
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.42
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.56
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.62
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.63
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.64
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.6
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.6
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.56
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.56
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.56
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.64
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.63
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.55
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.53
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.52
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.52
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.51
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.51
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.51
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.52
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.51
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.51
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.51
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.52
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.49
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.51
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.5
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.46
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.39
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.3
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.2
rrl 1476728 n.3071T>C non_coding_transcript_exon_variant 1.0
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
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
kasA 2519305 c.1191A>G synonymous_variant 1.0
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
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3474684 c.678T>C synonymous_variant 0.99
fprA 3475159 p.Asn385Asp missense_variant 1.0
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 0.99
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
embA 4244895 p.Thr555Ala missense_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
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