TB-Profiler result

Run: SRR7535047
Summary

Run ID: SRR7535047

Sample name:

Date: 04-04-2023 19:42:33

Number of reads: 4539526

Percentage reads mapped: 35.1

Strain: lineage4.6.1.1

Drug-resistance: RR-TB

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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
lineage4.6 Euro-American T;LAM None 0.99
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.1 Euro-American T2-Uganda RD724 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
rpoB 761196 p.Leu464Met missense_variant 0.18 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.75 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.81 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.78 kanamycin, capreomycin, aminoglycosides, amikacin
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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760176 p.Ala124Ser missense_variant 0.11
rpoB 760181 c.375T>G synonymous_variant 0.14
rpoB 760184 c.378A>G synonymous_variant 0.2
rpoB 760208 p.Ile134Met missense_variant 0.25
rpoB 760223 c.417T>C synonymous_variant 0.25
rpoB 760235 c.429T>C synonymous_variant 0.29
rpoB 760241 c.435G>C synonymous_variant 0.28
rpoB 760244 c.438G>C synonymous_variant 0.24
rpoB 760253 c.447T>C synonymous_variant 0.24
rpoB 760263 p.Met153Leu missense_variant 0.21
rpoB 760274 p.Glu156Asp missense_variant 0.17
rpoB 761201 c.1395G>A synonymous_variant 0.26
rpoB 761213 c.1407G>C synonymous_variant 0.43
rpoB 761234 c.1428G>C synonymous_variant 0.38
rpoB 761249 c.1443A>G synonymous_variant 0.32
rpoB 761252 c.1446C>G synonymous_variant 0.3
rpoB 761255 c.1449T>G synonymous_variant 0.3
rpoB 761261 c.1455G>C synonymous_variant 0.3
rpoB 761264 c.1458C>G synonymous_variant 0.29
rpoB 761273 c.1467T>C synonymous_variant 0.26
rpoB 761276 c.1470G>C synonymous_variant 0.25
rpoB 761528 c.1722C>T synonymous_variant 0.18
rpoB 761531 c.1725C>A synonymous_variant 0.19
rpoB 761535 p.Pro577Ala missense_variant 0.19
rpoB 761549 c.1743G>C synonymous_variant 0.29
rpoB 761555 c.1749G>C synonymous_variant 0.31
rpoB 761565 p.Met587Leu missense_variant 0.33
rpoB 761570 c.1764T>C synonymous_variant 0.32
rpoB 761573 c.1767C>G synonymous_variant 0.31
rpoB 761579 c.1773G>C synonymous_variant 0.31
rpoB 761603 c.1797C>G synonymous_variant 0.38
rpoB 761612 c.1806G>T synonymous_variant 0.36
rpoB 761615 c.1809A>G synonymous_variant 0.33
rpoB 761627 c.1821C>T synonymous_variant 0.3
rpoB 761633 c.1827G>C synonymous_variant 0.29
rpoB 761645 c.1839C>G synonymous_variant 0.15
rpoB 761948 c.2142G>C synonymous_variant 0.25
rpoB 761954 c.2148C>A synonymous_variant 0.28
rpoB 761955 p.Ile717Phe missense_variant 0.3
rpoB 761961 p.Pro719Ser missense_variant 0.35
rpoB 761973 p.His723Tyr missense_variant 0.43
rpoB 762003 p.Asn733Gln missense_variant 0.4
rpoB 762009 p.Leu735Met missense_variant 0.39
rpoB 762014 c.2208C>G synonymous_variant 0.34
rpoB 762015 p.Glu737Gln missense_variant 0.33
rpoB 762020 p.Glu738Asp missense_variant 0.33
rpoB 762030 p.Thr742Ser missense_variant 0.33
rpoB 762047 c.2241G>A synonymous_variant 0.22
rpoB 762185 c.2379G>T synonymous_variant 0.22
rpoB 762194 c.2388G>C synonymous_variant 0.27
rpoB 762218 c.2412T>C synonymous_variant 0.32
rpoB 762224 c.2418C>T synonymous_variant 0.34
rpoB 762233 c.2427G>C synonymous_variant 0.33
rpoB 762236 c.2430G>C synonymous_variant 0.31
rpoB 762239 c.2433G>A synonymous_variant 0.31
rpoB 762245 c.2439G>C synonymous_variant 0.33
rpoB 762254 c.2448T>C synonymous_variant 0.29
rpoB 762257 c.2451C>G synonymous_variant 0.29
rpoB 762273 p.Ala823Ser missense_variant 0.26
rpoB 762278 c.2472C>T synonymous_variant 0.19
rpoC 762827 c.-543G>C upstream_gene_variant 0.25
rpoC 762831 c.-539_-538delAGinsTC upstream_gene_variant 0.25
rpoB 762855 p.Val1017Ile missense_variant 0.35
rpoB 762858 p.Thr1018Ser missense_variant 0.36
rpoC 762863 c.-507T>C upstream_gene_variant 0.33
rpoB 762876 p.Ile1024Leu missense_variant 0.35
rpoB 762879 p.Met1025Leu missense_variant 0.34
rpoC 762899 c.-471G>C upstream_gene_variant 0.47
rpoC 762917 c.-453C>A upstream_gene_variant 0.45
rpoC 762920 c.-450C>T upstream_gene_variant 0.43
rpoC 762923 c.-447C>G upstream_gene_variant 0.45
rpoC 762929 c.-441G>A upstream_gene_variant 0.51
rpoC 762980 c.-390T>C upstream_gene_variant 0.48
rpoC 762983 c.-387C>T upstream_gene_variant 0.46
rpoC 762989 c.-381G>C upstream_gene_variant 0.45
rpoC 762995 c.-375G>T upstream_gene_variant 0.41
rpoB 763005 p.Cys1067Gly missense_variant 0.26
rpoC 763013 c.-357C>A upstream_gene_variant 0.17
rpoB 763014 p.Met1070Leu missense_variant 0.17
rpoB 763017 p.Gln1071Glu missense_variant 0.22
rpoC 763022 c.-348C>A upstream_gene_variant 0.24
rpoC 763031 c.-339T>C upstream_gene_variant 0.26
rpoC 763040 c.-330C>T upstream_gene_variant 0.26
rpoC 763052 c.-318G>C upstream_gene_variant 0.23
rpoC 763053 c.-317T>C upstream_gene_variant 0.23
rpoC 763058 c.-312C>G upstream_gene_variant 0.24
rpoB 763075 p.Thr1090Ile missense_variant 0.27
rpoB 763077 p.Val1091Pro missense_variant 0.29
rpoC 763094 c.-276G>C upstream_gene_variant 0.32
rpoC 763115 c.-255T>C upstream_gene_variant 0.26
rpoB 763118 p.Glu1104Asp missense_variant 0.17
rpoB 763122 p.Ile1106Leu missense_variant 0.15
rpoB 763128 p.Glu1108Asn missense_variant 0.14
rpoC 763456 c.87A>G synonymous_variant 0.26
rpoC 763462 c.93G>C synonymous_variant 0.38
rpoC 763483 c.114G>C synonymous_variant 0.58
rpoC 763486 c.117T>C synonymous_variant 0.59
rpoC 763528 c.159G>A synonymous_variant 0.83
rpoC 763534 c.165T>C synonymous_variant 0.81
rpoC 763537 c.168C>T synonymous_variant 0.81
rpoC 763546 c.177A>G synonymous_variant 0.82
rpoC 763570 c.201G>C synonymous_variant 0.82
rpoC 763597 c.228G>A synonymous_variant 0.67
rpoC 763606 c.237C>T synonymous_variant 0.65
rpoC 763615 c.246G>C synonymous_variant 0.66
rpoC 763630 c.261G>C synonymous_variant 0.61
rpoC 763633 c.264T>C synonymous_variant 0.6
rpoC 763642 c.273G>C synonymous_variant 0.62
rpoC 763660 c.291T>C synonymous_variant 0.58
rpoC 763666 c.297G>C synonymous_variant 0.54
rpoC 763669 c.300C>G synonymous_variant 0.54
rpoC 763672 c.303C>G synonymous_variant 0.53
rpoC 763702 c.333C>G synonymous_variant 0.58
rpoC 763708 c.339G>C synonymous_variant 0.56
rpoC 763714 c.345G>C synonymous_variant 0.52
rpoC 763717 c.348T>C synonymous_variant 0.5
rpoC 763723 c.354G>C synonymous_variant 0.48
rpoC 763732 c.363C>G synonymous_variant 0.42
rpoC 763751 p.Ile128Val missense_variant 0.34
rpoC 763765 c.396T>C synonymous_variant 0.32
rpoC 763772 p.Val135Met missense_variant 0.27
rpoC 764314 c.945C>T synonymous_variant 0.28
rpoC 764317 c.948C>G synonymous_variant 0.29
rpoC 764318 p.Val317Ile missense_variant 0.28
rpoC 764353 c.984G>C synonymous_variant 0.45
rpoC 764371 c.1002G>C synonymous_variant 0.35
rpoC 764380 c.1011G>C synonymous_variant 0.35
rpoC 764383 c.1014C>G synonymous_variant 0.36
rpoC 764387 c.1018_1020delTTGinsCTC synonymous_variant 0.32
rpoC 764404 c.1035C>T synonymous_variant 0.15
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.15
rpoC 764410 c.1041G>C synonymous_variant 0.15
rpoC 764446 c.1077T>C synonymous_variant 0.15
rpoC 764458 c.1089G>T synonymous_variant 0.33
rpoC 764461 c.1092A>G synonymous_variant 0.4
rpoC 764470 c.1101C>G synonymous_variant 0.5
rpoC 764498 p.Ser377Ala missense_variant 0.56
rpoC 764503 c.1134G>C synonymous_variant 0.59
rpoC 764507 p.Ala380Ser missense_variant 0.6
rpoC 764521 c.1152T>C synonymous_variant 0.56
rpoC 764536 c.1167G>T synonymous_variant 0.58
rpoC 764539 c.1170C>G synonymous_variant 0.58
rpoC 764548 c.1179G>A synonymous_variant 0.57
rpoC 764560 c.1191T>C synonymous_variant 0.56
rpoC 764575 c.1206T>G synonymous_variant 0.54
rpoC 764581 c.1212T>C synonymous_variant 0.53
rpoC 764582 p.Leu405Met missense_variant 0.52
rpoC 764611 c.1242G>C synonymous_variant 0.66
rpoC 764632 c.1263T>C synonymous_variant 0.62
rpoC 764644 c.1275G>C synonymous_variant 0.43
rpoC 764650 c.1281G>T synonymous_variant 0.36
rpoC 764662 c.1293G>C synonymous_variant 0.28
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781748 c.189C>G synonymous_variant 0.13
rpsL 781751 c.192G>C synonymous_variant 0.13
rpsL 781754 c.195G>C synonymous_variant 0.26
rpsL 781763 c.204C>G synonymous_variant 0.46
rpsL 781796 p.Met79Ile missense_variant 0.47
rpsL 781805 c.246G>C synonymous_variant 0.47
rpsL 781811 c.252C>A synonymous_variant 0.47
rpsL 781817 c.258G>A synonymous_variant 0.44
rpsL 781820 c.261G>C synonymous_variant 0.46
rpsL 781829 c.270G>C synonymous_variant 0.33
rpsL 781832 c.273T>C synonymous_variant 0.32
rpsL 781835 c.276T>C synonymous_variant 0.31
rpsL 781851 p.Ile98Val missense_variant 0.18
rplC 800618 c.-191T>G upstream_gene_variant 0.14
rplC 800633 c.-176T>C upstream_gene_variant 0.14
rplC 800645 c.-164C>T upstream_gene_variant 0.15
rplC 800648 c.-161A>G upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471967 n.122G>A non_coding_transcript_exon_variant 0.26
rrs 1471970 n.125G>A non_coding_transcript_exon_variant 0.28
rrs 1471972 n.127T>C non_coding_transcript_exon_variant 0.28
rrs 1471979 n.134T>C non_coding_transcript_exon_variant 0.28
rrs 1471980 n.135G>T non_coding_transcript_exon_variant 0.27
rrs 1471981 n.136C>G non_coding_transcript_exon_variant 0.31
rrs 1472092 n.247C>T non_coding_transcript_exon_variant 0.33
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.46
rrs 1472107 n.262A>G non_coding_transcript_exon_variant 0.47
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.5
rrs 1472120 n.275G>A non_coding_transcript_exon_variant 0.66
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.8
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.81
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.84
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.68
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.66
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.66
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.6
rrs 1472279 n.434T>G non_coding_transcript_exon_variant 0.35
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.13
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.13
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.17
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.45
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.53
rrs 1472380 n.535G>A non_coding_transcript_exon_variant 0.6
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.61
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.52
rrs 1472427 n.582T>G non_coding_transcript_exon_variant 0.18
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.25
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.33
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.33
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.34
rrs 1472506 n.661A>T non_coding_transcript_exon_variant 0.53
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.77
rrs 1472572 n.727T>A non_coding_transcript_exon_variant 0.88
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.85
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.85
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.74
rrs 1472660 n.815T>A non_coding_transcript_exon_variant 0.74
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.62
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.62
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.63
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.62
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.62
rrs 1472686 n.841G>A non_coding_transcript_exon_variant 0.61
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.63
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.75
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.79
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.29
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.24
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.24
rrs 1472836 n.991G>A non_coding_transcript_exon_variant 0.13
rrs 1472875 n.1030T>G non_coding_transcript_exon_variant 0.15
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.33
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.51
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.75
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.72
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.73
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.73
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.74
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.75
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.75
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.74
rrs 1472991 n.1146G>A non_coding_transcript_exon_variant 0.74
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.8
rrs 1473047 n.1202C>T non_coding_transcript_exon_variant 0.76
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.73
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.73
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.78
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.77
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.72
rrs 1473094 n.1249T>G non_coding_transcript_exon_variant 0.72
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.71
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.69
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.66
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.67
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.69
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.7
rrs 1473123 n.1278A>G non_coding_transcript_exon_variant 0.71
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.81
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.85
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.85
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.85
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.82
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.79
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.76
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.79
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.78
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.78
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.66
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.7
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.61
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.62
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.62
rrl 1473884 n.227C>T non_coding_transcript_exon_variant 0.6
rrl 1473888 n.231T>C non_coding_transcript_exon_variant 0.59
rrl 1473889 n.232G>A non_coding_transcript_exon_variant 0.59
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.58
rrl 1473899 n.242A>T non_coding_transcript_exon_variant 0.58
rrl 1473922 n.265A>T non_coding_transcript_exon_variant 0.19
rrl 1473923 n.266C>G non_coding_transcript_exon_variant 0.12
rrl 1473926 n.269G>C non_coding_transcript_exon_variant 0.12
rrl 1474141 n.484G>C non_coding_transcript_exon_variant 0.12
rrl 1474142 n.485C>G non_coding_transcript_exon_variant 0.14
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.32
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.38
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.51
rrl 1474171 n.514C>G non_coding_transcript_exon_variant 0.55
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.6
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.59
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.6
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.68
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.72
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.67
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.62
rrl 1474292 n.636_651delTCCTCTCCGGAGGAGG non_coding_transcript_exon_variant 0.53
rrl 1474310 n.653_654insTGG non_coding_transcript_exon_variant 0.43
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.53
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.5
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.51
rrl 1474359 n.702C>A non_coding_transcript_exon_variant 0.51
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.52
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.44
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.41
rrl 1474476 n.819C>G non_coding_transcript_exon_variant 0.29
rrl 1474483 n.826C>G non_coding_transcript_exon_variant 0.35
rrl 1474496 n.839C>T non_coding_transcript_exon_variant 0.47
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.49
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.54
rrl 1474507 n.850G>A non_coding_transcript_exon_variant 0.54
rrl 1474520 n.863A>C non_coding_transcript_exon_variant 0.6
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.55
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.55
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.54
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.54
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.53
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.58
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.59
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.73
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.62
rrl 1474633 n.977_981delTCACC non_coding_transcript_exon_variant 0.64
rrl 1474640 n.983_984insTTTCT non_coding_transcript_exon_variant 0.63
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.62
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.52
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.48
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.51
rrl 1474692 n.1035G>A non_coding_transcript_exon_variant 0.4
rrl 1474711 n.1054G>A non_coding_transcript_exon_variant 0.22
rrl 1474715 n.1061delA non_coding_transcript_exon_variant 0.24
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.36
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.42
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.43
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.46
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.5
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.51
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.52
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.53
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.55
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.65
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.81
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.8
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.79
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.76
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.62
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.58
rrl 1474927 n.1271delC non_coding_transcript_exon_variant 0.38
rrl 1475088 n.1431A>G non_coding_transcript_exon_variant 0.16
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.19
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.44
rrl 1475109 n.1452C>T non_coding_transcript_exon_variant 0.48
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.52
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.53
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.59
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.71
rrl 1475508 n.1851A>T non_coding_transcript_exon_variant 0.25
rrl 1475518 n.1861A>T non_coding_transcript_exon_variant 0.31
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.33
rrl 1475532 n.1875A>G non_coding_transcript_exon_variant 0.33
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.33
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.34
rrl 1475548 n.1891C>T non_coding_transcript_exon_variant 0.34
rrl 1475549 n.1892T>C non_coding_transcript_exon_variant 0.33
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.33
rrl 1475571 n.1914A>T non_coding_transcript_exon_variant 0.43
rrl 1475589 n.1932G>A non_coding_transcript_exon_variant 0.39
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.16
rrl 1475649 n.1992A>G non_coding_transcript_exon_variant 0.41
rrl 1475655 n.1998T>A non_coding_transcript_exon_variant 0.52
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.55
rrl 1475696 n.2039T>A non_coding_transcript_exon_variant 0.75
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.75
rrl 1475703 n.2046A>T non_coding_transcript_exon_variant 0.76
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.74
rrl 1475761 n.2104C>T non_coding_transcript_exon_variant 0.69
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.69
rrl 1475763 n.2107_2109delAAG non_coding_transcript_exon_variant 0.7
rrl 1475769 n.2112_2113insTC non_coding_transcript_exon_variant 0.77
rrl 1475871 n.2214T>C non_coding_transcript_exon_variant 0.76
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.69
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.69
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.61
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.6
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.61
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.61
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.67
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.66
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.64
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.57
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.53
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.55
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.54
rrl 1475989 n.2332T>G non_coding_transcript_exon_variant 0.54
rrl 1475990 n.2333G>A non_coding_transcript_exon_variant 0.54
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.54
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.56
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.14
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.14
rrl 1476105 n.2450delA non_coding_transcript_exon_variant 0.28
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.55
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.72
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.72
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.8
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.79
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.78
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.77
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.76
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.76
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.69
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.56
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.26
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.67
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.78
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.85
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.79
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.79
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.74
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.68
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.6
rrl 1476519 n.2862C>T non_coding_transcript_exon_variant 0.57
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.57
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.6
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.6
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.6
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.61
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.62
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.63
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.7
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.78
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.78
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.76
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.67
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.67
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.69
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.66
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.66
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.63
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.62
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.62
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.21
rpsA 1833988 c.447C>G synonymous_variant 0.17
rpsA 1833991 c.450C>T synonymous_variant 0.19
rpsA 1833997 c.456G>T synonymous_variant 0.23
rpsA 1834000 c.459G>C synonymous_variant 0.22
rpsA 1834012 c.471G>C synonymous_variant 0.22
rpsA 1834015 c.474G>C synonymous_variant 0.23
rpsA 1834025 p.Gln162Ser missense_variant 0.24
rpsA 1834030 c.489C>G synonymous_variant 0.27
rpsA 1834040 p.Lys167Gln missense_variant 0.26
rpsA 1834043 p.Glu168Gln missense_variant 0.28
rpsA 1834046 p.Ile169Val missense_variant 0.27
rpsA 1834066 c.525G>A synonymous_variant 0.26
rpsA 1834213 c.672G>C synonymous_variant 0.2
rpsA 1834231 c.690T>C synonymous_variant 0.15
rpsA 1834234 c.693G>C synonymous_variant 0.15
rpsA 1834240 c.699T>A synonymous_variant 0.14
rpsA 1834243 c.702G>C synonymous_variant 0.15
rpsA 1834246 c.705G>C synonymous_variant 0.13
rpsA 1834249 c.708T>C synonymous_variant 0.15
rpsA 1834261 c.720A>G synonymous_variant 0.18
rpsA 1834264 c.723G>C synonymous_variant 0.18
rpsA 1834286 c.745_746delTCinsAG synonymous_variant 0.12
rpsA 1834303 c.762T>C synonymous_variant 0.13
rpsA 1834348 c.807T>C synonymous_variant 0.3
rpsA 1834354 c.813G>C synonymous_variant 0.22
rpsA 1834357 c.816T>G synonymous_variant 0.22
rpsA 1834360 c.819G>C synonymous_variant 0.21
rpsA 1834361 c.820T>C synonymous_variant 0.21
rpsA 1834366 c.825A>G synonymous_variant 0.27
rpsA 1834375 c.834G>C synonymous_variant 0.33
rpsA 1834378 c.837T>C synonymous_variant 0.4
rpsA 1834387 c.846C>T synonymous_variant 0.44
rpsA 1834395 p.Arg285Gln missense_variant 0.49
rpsA 1834411 c.870T>C synonymous_variant 0.43
rpsA 1834416 p.Ala292Val missense_variant 0.4
rpsA 1834423 c.882G>A synonymous_variant 0.49
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.49
rpsA 1834456 c.915T>C synonymous_variant 0.5
rpsA 1834468 c.927A>G synonymous_variant 0.51
rpsA 1834474 c.933C>G synonymous_variant 0.48
rpsA 1834483 c.942G>A synonymous_variant 0.38
rpsA 1834486 p.Glu315Asp missense_variant 0.32
rpsA 1834489 c.948T>C synonymous_variant 0.31
rpsA 1834498 c.957C>T synonymous_variant 0.26
rpsA 1834501 c.960G>C synonymous_variant 0.23
rpsA 1834504 c.963G>C synonymous_variant 0.22
rpsA 1834516 c.975G>A synonymous_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 0.96
PPE35 2170048 p.Leu189Val missense_variant 0.33
PPE35 2170053 p.Thr187Ser missense_variant 0.31
Rv1979c 2222370 c.795G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065728 p.Ala155Val missense_variant 1.0
Rv3083 3449093 p.Ala197Asp missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612410 p.Leu236Gln missense_variant 0.12
clpC1 4039898 c.807C>G synonymous_variant 0.24
clpC1 4039901 c.804C>G synonymous_variant 0.23
clpC1 4039916 c.789T>C synonymous_variant 0.23
clpC1 4039928 c.775_777delAGCinsTCG synonymous_variant 0.14
clpC1 4039931 c.774T>C synonymous_variant 0.15
clpC1 4039934 c.771G>C synonymous_variant 0.14
clpC1 4039940 c.765G>C synonymous_variant 0.15
clpC1 4039946 c.759A>T synonymous_variant 0.14
clpC1 4039949 c.756G>C synonymous_variant 0.17
clpC1 4039958 c.747G>C synonymous_variant 0.29
clpC1 4039978 p.Lys243Glu missense_variant 0.36
clpC1 4039982 p.Thr241Ile missense_variant 0.33
clpC1 4039994 p.Glu237Asp missense_variant 0.41
clpC1 4039997 c.708C>T synonymous_variant 0.43
clpC1 4040001 p.His235Arg missense_variant 0.46
clpC1 4040009 c.696C>T synonymous_variant 0.52
clpC1 4040015 c.690G>T synonymous_variant 0.55
clpC1 4040021 c.684A>C synonymous_variant 0.57
clpC1 4040024 c.681A>G synonymous_variant 0.58
clpC1 4040033 c.672G>C synonymous_variant 0.63
clpC1 4040063 c.642G>C synonymous_variant 0.51
clpC1 4040066 c.639G>C synonymous_variant 0.44
clpC1 4040069 c.636G>T synonymous_variant 0.45
clpC1 4040081 c.624C>G synonymous_variant 0.31
clpC1 4040087 c.618G>C synonymous_variant 0.29
clpC1 4040090 c.615T>G synonymous_variant 0.27
clpC1 4040324 c.381G>C synonymous_variant 0.19
clpC1 4040333 c.372G>C synonymous_variant 0.18
clpC1 4040357 c.348T>C synonymous_variant 0.24
clpC1 4040360 c.345G>A synonymous_variant 0.25
clpC1 4040363 c.342A>C synonymous_variant 0.24
clpC1 4040375 c.330G>C synonymous_variant 0.2
clpC1 4040380 c.325T>C synonymous_variant 0.19
clpC1 4040381 c.324T>C synonymous_variant 0.17
clpC1 4040387 c.318A>G synonymous_variant 0.18
clpC1 4040393 c.312G>C synonymous_variant 0.19
clpC1 4040403 p.Asn101Thr missense_variant 0.19
clpC1 4040411 c.294T>G synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.14
embB 4246555 c.42G>C synonymous_variant 0.17
embB 4246556 p.Ala15Pro missense_variant 0.17
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0