NY-3 - Complete Raw Mutation Data

Full TSV data with all sample columns and abundance information
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Complete Mutations Data

This table shows the complete data from the mutations.tsv file exactly as it appears in the source. Scroll horizontally to see all columns.

Unnamed: 0 Unnamed: 1 Unnamed: 2 Unnamed: 3 SRR15128983 Unnamed: 5 SRR15202279 Unnamed: 7 SRR15291305 Unnamed: 9 SRR16038156 Unnamed: 11 SRR15128974 Unnamed: 13 SRR15128979 Unnamed: 15 SRR15128982 Unnamed: 17 SRR15202285 Unnamed: 19 SRR15202286 Unnamed: 21 SRR15291310 Unnamed: 23 SRR15291312 Unnamed: 25 SRR15291313 Unnamed: 27 SRR15706695 Unnamed: 29 SRR16038036 Unnamed: 31 Unnamed: 32 Unnamed: 33 Unnamed: 34 Unnamed: 35 Unnamed: 36 Key Unnamed: 38
('2021-06-15/2021-06-16', 'NA') ('2021-06-27/2021-06-28', 'NA') ('2021-07-04/2021-07-05', 'NA') ('2021-08-08/2021-08-09', 'NA') ('2021-06-15/2021-06-16', 'NA') ('2021-06-15/2021-06-16', 'NA') ('2021-06-15/2021-06-16', 'NA') ('2021-06-27/2021-06-28', 'NA') ('2021-06-27/2021-06-28', 'NA') ('2021-07-04/2021-07-05', 'NA') ('2021-07-04/2021-07-05', 'NA') ('2021-07-04/2021-07-05', 'NA') ('2021-08-08/2021-08-09', '100000') ('2021-08-08/2021-08-09', '100000') Cryptic Sewershed
Linked/Ubiquitous Position Flagged Sequences Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Total samples Positives Sum Negatives Sum Total Sum Non-Cryptic Sewershed
404 A404T|(ORF1ab_polyprotein:A139T(K47*))|(ORF1a_polyprotein:A139T(K47*)) 107 0.01 64 0.001 82 0.943 18 0.004 145 0.013 5 0.954 0.017 0.971
569 G569A|(ORF1ab_polyprotein:G304A(E102K))|(ORF1a_polyprotein:G304A(E102K)) 10409 0.994 343 0.386 2 1.38 0 1.38
570 A570C|(ORF1ab_polyprotein:A305C(E102A))|(ORF1a_polyprotein:A305C(E102A)) 11954 0.378 280 0.312 2 0.69 0 0.69
1058 A1058C|(ORF1ab_polyprotein:ACC793-795CTC(T265L))|(ORF1a_polyprotein:ACC793-795CTC(T265L)) 2080 0.992 3 0.5 2 1.492 0 1.492
1059 C1059T|(ORF1ab_polyprotein:ACC793-795CTC(T265L))|(ORF1a_polyprotein:ACC793-795CTC(T265L)) 2080 0.992 3 0.5 2 1.492 0 1.492
1059 C1059T|(ORF1ab_polyprotein:C794T(T265I))|(ORF1a_polyprotein:C794T(T265I)) 5 0.002 4760 0.468 18 0.002 3 0.47 0.002 0.472
1397 G1397A|(ORF1ab_polyprotein:G1132A(V378I))|(ORF1a_polyprotein:G1132A(V378I)) 9520 0.996 241 0.428 2 1.424 0 1.424
2841 C2841A|(ORF1ab_polyprotein:C2576A(A859D))|(ORF1a_polyprotein:C2576A(A859D)) 238 0.992 3 1 2 1.992 0 1.992
4113 C4113T|(ORF1ab_polyprotein:C3848T(A1283V))|(ORF1a_polyprotein:C3848T(A1283V)) 4513 0.488 8147 0.981 11443 0.996 2123 0.735 4 3.2 0 3.2
4230 C4230T|(ORF1ab_polyprotein:C3965T(T1322I))|(ORF1a_polyprotein:C3965T(T1322I)) 9679 0.498 8033 0.973 3609 0.729 3 2.2 0 2.2
5181 A5181C|(ORF1ab_polyprotein:A4916C(D1639A))|(ORF1a_polyprotein:A4916C(D1639A)) 83 1 12 1 3 1 3 3 0 3
5183 C5183T|(ORF1ab_polyprotein:C4918T(P1640S))|(ORF1a_polyprotein:C4918T(P1640S)) 83 1 12 1 3 1 3 3 0 3
5507 T5507G|(ORF1ab_polyprotein:T5242G(L1748V))|(ORF1a_polyprotein:T5242G(L1748V)) 22 1 298 0.997 8 0.889 3 2.886 0 2.886
5648 RATG13 A5648C|(ORF1ab_polyprotein:A5383C(K1795Q))|(ORF1a_polyprotein:A5383C(K1795Q)) 29855 0.994 18 0.003 32326 0.992 189 0.99 83 0.001 5 2.979 0.001 2.98
8165 A8165G|(ORF1ab_polyprotein:A7900G(I2634V))|(ORF1a_polyprotein:A7900G(I2634V)) 9499 0.995 12719 0.996 2 1.991 0 1.991
8293 C8293T|(ORF1ab_polyprotein:C8028T(T2676T))|(ORF1a_polyprotein:C8028T(T2676T)) 8623 0.994 15502 0.995 2 1.98899999999999 0 1.98899999999999
9204 A9204G|(ORF1ab_polyprotein:A8939G(D2980G))|(ORF1a_polyprotein:A8939G(D2980G)) 3929 0.994 12619 0.996 30 0.811 3 2.801 0 2.801
9479 G9479T|(ORF1ab_polyprotein:G9214T(G3072C))|(ORF1a_polyprotein:G9214T(G3072C)) 1156 0.986 1284 0.972 166 0.96 17 0.003 4 2.918 0.003 2.921
9711 C9711T|(ORF1ab_polyprotein:C9446T(S3149F))|(ORF1a_polyprotein:C9446T(S3149F)) 11002 0.997 3483 0.449 5082 0.996 1975 0.592 4 3.034 0 3.034
9982 T9982C|(ORF1ab_polyprotein:T9717C(N3239N))|(ORF1a_polyprotein:T9717C(N3239N)) 563 0.984 484 0.992 6 0.5 3 2.476 0 2.476
11003 C11003T|(ORF1ab_polyprotein:C10738T(H3580Y))|(ORF1a_polyprotein:C10738T(H3580Y)) 1145 0.969 103 0.92 2 1.889 0 1.889
11090 A11090C|(ORF1ab_polyprotein:A10825C(N3609H))|(ORF1a_polyprotein:A10825C(N3609H)) 53 0.002 4254 0.394 2 0.396 0 0.396
11345 C11345T|(ORF1ab_polyprotein:C11080T(L3694F))|(ORF1a_polyprotein:C11080T(L3694F)) 21516 0.983 2 0.333 8853 0.997 3 2.313 0 2.313
11670 G11670A|(ORF1ab_polyprotein:G11405A(R3802H))|(ORF1a_polyprotein:G11405A(R3802H)) 451 0.934 4959 0.91 12 0.923 6 0.001 4 2.767 0.001 2.768
11916 C11916T|(ORF1ab_polyprotein:C11651T(S3884L))|(ORF1a_polyprotein:C11651T(S3884L)) 6775 0.986 12215 0.408 17990 0.991 68 0.986 4 3.371 0 3.371
12331 G12331T|(ORF1ab_polyprotein:G12066T(R4022S))|(ORF1a_polyprotein:G12066T(R4022S)) 3256 0.404 14 0.005 15 0.002 3 0.411 0 0.411
13339 T13339C|(ORF1ab_polyprotein:T13074C(N4358N))|(ORF1a_polyprotein:T13074C(N4358N)) 8388 0.188 61461 0.927 47294 0.528 3 1.643 0 1.643
13850 G13850T|(ORF1ab_polyprotein:G13586T(G4529V)) 1640 0.998 51 0.011 84 0.002 3 1.009 0.002 1.011
14892 T14892G|(ORF1ab_polyprotein:T14628G(D4876E)) 6680 0.996 5138 0.417 7999 0.993 2 1 4 3.406 0 3.406
15207 RATG13 T15207C|(ORF1ab_polyprotein:T14943C(I4981I)) 2154 0.352 5516 0.362 7 0.097 3 0.810999999999999 0 0.810999999999999
17196 G17196A|(ORF1ab_polyprotein:G16932A(K5644K)) 164587 0.997 79510 0.644 104572 0.997 21179 0.821 4 3.459 0 3.459
17496 A17496C|(ORF1ab_polyprotein:A17232C(E5744D)) 3805 0.995 10249 0.996 56 0.361 9 0.003 164 0.001 70 0.001 6 2.352 0.005 2.35699999999999
18252 RATG13 C18252T|(ORF1ab_polyprotein:C17988T(N5996N)) 3158 0.624 4575 0.409 14088 0.551 2 0.133 4 1.717 0 1.717
18660 T18660C|(ORF1ab_polyprotein:T18396C(C6132C)) 44907 0.928 26530 0.993 2344 0.935 3 2.856 0 2.856
18722 A18722G|(ORF1ab_polyprotein:A18458G(H6153R)) 7089 0.131 20068 0.992 7 0.003 3 1.126 0 1.126
18744 RATG13 C18744T|(ORF1ab_polyprotein:C18480T(Y6160Y)) 23213 0.404 2670 0.949 2 1.353 0 1.353
18998 C18998T|(ORF1ab_polyprotein:C18734T(A6245V)) 10427 0.974 232 0.808 2 1.782 0 1.782
19659 A19659G|(ORF1ab_polyprotein:A19395G(G6465G)) 1951 0.996 498 0.973 3 0.231 3 2.2 0 2.2
19750 G19750C|(ORF1ab_polyprotein:G19486C(E6496Q)) 2089 0.997 419 0.968 8 1 3 2.965 0 2.965
20409 T20409A|(ORF1ab_polyprotein:T20145A(F6715L)) 111 1 55 1 2 1 3 3 0 3
20451 RATG13 C20451T|(ORF1ab_polyprotein:C20187T(N6729N)) 81 1 35 0.972 2 1 3 2.972 0 2.972
20757 T20757G|(ORF1ab_polyprotein:T20493G(S6831R)) 22596 0.993 11 0.289 2 1.282 0 1.282
20844 C20844T|(ORF1ab_polyprotein:C20580T(P6860P)) 4659 0.992 5313 0.341 99 0.861 3 2.194 0 2.194
21665 G21665-21665del|(surface_glycoprotein:103-103del(35fs)) 13 0.591 19 0.679 2 1.27 0 1.27
21711 RATG13 C21711T|(surface_glycoprotein:C149T(S50L)) 1493 0.985 1790 0.997 92 1 3 2.982 0 2.982
21758 CATGCTATA21758-21766del|(surface_glycoprotein:196-204del(HAI66-68del)) 773 0.951 1107 0.995 2 1.946 0 1.946
21991 TTA21991-21993del|(surface_glycoprotein:GTTTAT427-432GTTdel(VY143-144Vdel)) 1497 0.899 972 0.438 2 1.337 0 1.337
22012 A22012C|(surface_glycoprotein:A450C(K150N)) 16 0.01 1252 0.574 75 0.962 3 1.54599999999999 0 1.54599999999999
22104 G22104A|(surface_glycoprotein:G542A(G181E)) 372 0.969 1373 0.99 2 1.959 0 1.959
22340 G22340A|(surface_glycoprotein:G778A(A260T)) 1056 0.924 6 0.857 2 1.781 0 1.781
22812 A22812C|(surface_glycoprotein:A1250C(K417T)) 5 0.001 243 0.643 9 0.107 3 0.751 0 0.751
22893 A22893C|(surface_glycoprotein:A1331C(K444T)) 154 0.107 602 0.98 214 0.654 3 1.741 0 1.741
22907 T22907C|(surface_glycoprotein:T1345C(Y449H)) 144 0.993 580 0.988 265 0.858 3 2.839 0 2.839
23013 A23013C|(surface_glycoprotein:A1451C(E484A)) 160 0.988 7 0.001 574 0.995 326 0.988 4 2.972 0 2.972
23029 C23029T|(surface_glycoprotein:C1467T(Y489Y)) 153 0.981 564 0.993 121 0.364 3 2.338 0 2.338
23031 RATG13 T23031A|(surface_glycoprotein:T1469A(F490Y)) 152 0.974 10 0.002 565 0.995 329 0.997 4 2.968 0 2.968
23056 RATG13 A23056C|(surface_glycoprotein:A1494C(Q498H)) 170 0.983 8 0.002 605 0.995 288 0.923 4 2.903 0 2.903
23063 A23063T|(surface_glycoprotein:A1501T(N501Y)) 2 0.011 1662 0.321 18 0.055 38 0.001 4 0.387 0.001 0.388
ubiq 23403 Delta A23403G|(surface_glycoprotein:A1841G(D614G)) 55147 0.994 22892 0.98 70115 0.994 19089 0.996 353 0.983 3 1 54531 0.994 4 1 8997 0.996 9 3.964 4.973 8.937
24044 C24044T|(surface_glycoprotein:C2482T(L828F)) 2206 0.632 2629 0.605 429 0.621 3 1.858 0 1.858
24418 C24418T|(surface_glycoprotein:C2856T(V952V)) 836 0.992 6867 0.996 38 0.717 3 2.705 0 2.705
24931 T24931C|(surface_glycoprotein:T3369C(S1123S)) 2 0.222 270 0.153 2 0.375 0 0.375
25020 A25020C|(surface_glycoprotein:A3458C(D1153A)) 10342 0.995 25 0.001 115685 0.995 825 0.749 271 0.031 5 2.73999999999999 0.031 2.771
25057 T25057G|(surface_glycoprotein:T3495G(D1165E)) 12063 0.959 234 0.015 133456 0.995 60 0.099 7 0.001 254 0.004 6 2.068 0.005 2.073
25469 Delta C25469T|(ORF3a_protein:C77T(S26L)) 10142 0.437 131 0.171 2 0.608 0 0.608
linked 25563 G25563T|(ORF3a_protein:G171T(Q57H)) 3817 0.996 24167 0.975 17186 0.533 818 0.81 7745 0.991 5 3.314 0.991 4.305
25570 T25570A|(ORF3a_protein:T178A(S60T)) 2280 0.561 235 0.008 39 0.001 577 0.543 4 1.113 0 1.113
25785 G25785T|(ORF3a_protein:G393T(W131C)) 3 0.001 474 0.389 2 0.39 0 0.39
25936 C25936G|(ORF3a_protein:C544G(H182D)) 3466 0.997 2114 0.295 4404 0.994 22 0.71 4 2.996 0 2.996
25947 G25947C|(ORF3a_protein:G555C(Q185H)) 1069 0.243 956 0.111 5409 0.995 34 0.739 4 2.088 0 2.088
25980 A25980G|(ORF3a_protein:A588G(G196G)) 1317 0.305 27 0.458 2 0.763 0 0.763
26030 A26030T|(ORF3a_protein:A638T(Q213L)) 2165 0.282 49 0.671 2 0.001 3 0.953 0.001 0.954
26159 TTA26159-26161del|(ORF3a_protein:GTTAAT766-771GATdel(VN256-257Ddel)) 6905 0.971 2123 0.333 7330 0.977 55 0.797 4 3.078 0 3.078
26171 T26171A|(ORF3a_protein:T779A(M260K)) 29 0.005 39 0.565 2 0.002 3 0.57 0.002 0.572
26533 C26533A|(membrane_glycoprotein:C11A(S4Y)) 3491 0.997 7 0.467 57 0.57 10 0.002 9 0.001 5 2.034 0.003 2.037
26864 A26864T|(membrane_glycoprotein:A342T(P114P)) 5326 0.976 2 0.006 2 0.982 0 0.982
26903 T26903C|(membrane_glycoprotein:T381C(T127T)) 16442 0.994 54 0.331 2 1.325 0 1.325
26957 T26957G|(membrane_glycoprotein:T435G(L145L)) 63 0.006 72 0.486 2 0.492 0 0.492
27330 A27330C|(ORF6_protein:A129C(S43S)) 2651 0.993 20020 0.98 10189 0.994 1238 0.733 4 3.7 0 3.7
27384 T27384C|(ORF6_protein:T183C(D61D)) 3317 0.996 19599 0.674 14239 0.996 912 0.406 4 3.072 0 3.072
27541 G27541T|(ORF7a_protein:G148T(A50S)) 2 0.006 2 0.5 2 0.027 3 0.533 0 0.533
27907 T27907G|(ORF8_protein:T14G(V5G)) 214 0.973 340 0.997 13 0.65 3 2.62 0 2.62
27920 C27920T|(ORF8_protein:C27T(I9I)) 182 0.788 249 0.664 6 0.273 3 1.725 0 1.725
27929 RATG13 T27929A|(ORF8_protein:T36A(T12T)) 182 0.781 260 0.675 5 0.278 2 0.004 5 0.001 5 1.734 0.005 1.73899999999999
28271 A28271C 17489 0.997 9660 0.268 25336 0.296 118 0.304 4 1.865 0 1.865
28271 A28271T 9592 0.266 42334 0.495 181 0.466 18 0.002 4 1.227 0.002 1.229
28291 C28291T|(nucleocapsid_phosphoprotein:C18T(P6P)) 22178 0.292 84 0.251 2 0.542999999999999 0 0.542999999999999
28311 C28311T|(nucleocapsid_phosphoprotein:C38T(P13L)) 23468 0.3 142 0.4 2 0.7 0 0.7
29144 C29144T|(nucleocapsid_phosphoprotein:C871T(L291L)) 9170 0.321 7731 0.343 4828 0.164 8155 0.161 4 0.989 0 0.989
29540 G29540A 3930 0.875 2769 0.778 20223 0.99 733 0.71 6 0.001 5 3.35299999999999 0.001 3.35399999999999
29669 A29669G|(ORF10_protein:A112G(T38A)) 874 0.343 9860 0.546 27 0.036 3 0.925 0 0.925
29730 CACCGAGGCCACGCGGAGTACGATCGAGTGTACAGTG29730-29766del 760 0.342 197 0.088 1357 0.097 25 0.082 4 0.609 0 0.609
29736 GGCCACGCGGAGTACGATCGAGTGTACAGT29736-29765del 210 0.095 293 0.131 2907 0.208 24 0.079 4 0.513 0 0.513
29738 CCACGCGGAGTACGATCGAGTGT29738-29760del 973 0.438 939 0.421 9677 0.692 144 0.474 4 2.025 0 2.025