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family string | n_seqs int64 | length int64 | gap_rates list | gap_symbol string | mismatch_seqs int64 |
|---|---|---|---|---|---|
1-cysPrx_C | 2,481 | 42 | [
0.25110842402257155,
0.20354695687222893,
0.041515517936316,
0.03345425231761386,
0.029423619508262798,
0.027408303103587262,
0.014913341394598953,
0.01007658202337767,
0.8057234985892785,
0.006045949214026602,
0.0032245062474808546,
0.9230149133413946,
0.0012091898428053204,
0,
0,
0,
... | - | 0 |
14-3-3 | 1,377 | 229 | [
0.47785039941902685,
0.289760348583878,
0.2694262890341322,
0.2679738562091503,
0.26506899055918665,
0.26143790849673204,
0.25780682643427744,
0.2541757443718228,
0.2512708787218591,
0.25054466230936817,
0.2476397966594045,
0.2440087145969499,
0.2374727668845316,
0.2113289760348584,
0.20... | - | 0 |
17kDa_Anti_2 | 154 | 118 | [
0.935064935064935,
0.922077922077922,
0.922077922077922,
0.9155844155844156,
0.9155844155844156,
0.8961038961038961,
0.8766233766233766,
0.8701298701298701,
0.8506493506493507,
0.8116883116883117,
0.8051948051948052,
0.7922077922077922,
0.7727272727272727,
0.7337662337662337,
0.720779220... | - | 0 |
2-Hacid_dh | 5,000 | 337 | [
0.7358,
0.647,
0.619,
0.608,
0.6048,
0.576,
0.5874,
0.4952,
0.4724,
0.4558,
0.4356,
0.4132,
0.378,
0.3578,
0.3416,
0.3302,
0.3168,
0.8944,
0.9194,
0.8676,
0.589,
0.4686,
0.3418,
0.7526,
0.2536,
0.2438,
0.2374,
0.2334,
0.2246,
0.2158,
0.728,
0.845,
0.60... | - | 0 |
2-Hacid_dh_C | 5,000 | 204 | [
0.5712,
0.2572,
0.2054,
0.1784,
0.1692,
0.1652,
0.1622,
0.1578,
0.1556,
0.1548,
0.1528,
0.1522,
0.15,
0.1476,
0.1452,
0.1436,
0.1406,
0.138,
0.1362,
0.1336,
0.131,
0.1326,
0.122,
0.765,
0.906,
0.945,
0.9182,
0.8824,
0.6622,
0.5534,
0.291,
0.233,
0.101,... | - | 0 |
2-oxoacid_dh | 4,884 | 246 | [
0.9242424242424242,
0.5290745290745291,
0.31367731367731366,
0.19082719082719082,
0.14864864864864866,
0.12039312039312039,
0.10851760851760851,
0.09664209664209664,
0.0904995904995905,
0.08579033579033579,
0.0819000819000819,
0.08108108108108109,
0.07985257985257985,
0.07903357903357904,
... | - | 0 |
2-oxogl_dehyd_N | 1,227 | 40 | [
0.5859820700896495,
0.33088834555827223,
0.29665851670741644,
0.24938875305623473,
0.10024449877750612,
0.06927465362673187,
0.05460472697636512,
0.039119804400977995,
0.03178484107579462,
0.027709861450692746,
0.026079869600651995,
0.015484922575387123,
0.014669926650366748,
0.01303993480... | - | 0 |
2-ph_phosp | 431 | 247 | [
0.9025522041763341,
0.802784222737819,
0.7470997679814385,
0.6635730858468677,
0.605568445475638,
0.5707656612529002,
0.5498839907192575,
0.5150812064965197,
0.4918793503480278,
0.4408352668213457,
0.925754060324826,
0.2737819025522042,
0.23433874709976799,
0.17633410672853828,
0.1020881... | - | 0 |
23S_rRNA_IVP | 1,750 | 108 | [
0.5817142857142857,
0.396,
0.3502857142857143,
0.30114285714285716,
0.27485714285714286,
0.2542857142857143,
0.19485714285714287,
0.13028571428571428,
0.11314285714285714,
0.08571428571428572,
0.07657142857142857,
0.06742857142857143,
0.06285714285714286,
0.060571428571428575,
0.05771428... | - | 0 |
2CSK_N | 570 | 165 | [
0.6175438596491228,
0.3263157894736842,
0.15964912280701754,
0.10350877192982456,
0.07543859649122807,
0.05964912280701754,
0.0456140350877193,
0.0456140350877193,
0.042105263157894736,
0.042105263157894736,
0.04035087719298246,
0.043859649122807015,
0.03684210526315789,
0.0368421052631578... | - | 0 |
2Fe-2S_thioredx | 3,108 | 152 | [
0.8780566280566281,
0.5408622908622909,
0.43243243243243246,
0.3761261261261261,
0.35682110682110685,
0.3458815958815959,
0.33912483912483915,
0.33526383526383524,
0.3259330759330759,
0.758043758043758,
0.7503217503217503,
0.3124195624195624,
0.30984555984555984,
0.30727155727155725,
0.3... | - | 0 |
2HCT | 147 | 436 | [
0.46258503401360546,
0.20408163265306123,
0.14285714285714285,
0.1292517006802721,
0.11564625850340136,
0.10884353741496598,
0.10884353741496598,
0.09523809523809523,
0.08843537414965986,
0.08843537414965986,
0.08843537414965986,
0.08843537414965986,
0.08843537414965986,
0.0952380952380952... | - | 0 |
2OG-FeII_Oxy | 5,000 | 122 | [
0.917,
0.7648,
0.6362,
0.4606,
0.3434,
0.2668,
0.2078,
0.2018,
0.9338,
0.267,
0.1644,
0.1514,
0.1416,
0.9084,
0.9278,
0.8772,
0.138,
0.1402,
0.1368,
0.135,
0.1832,
0.8026,
0.9138,
0.8666,
0.7396,
0.0922,
0.0746,
0.0726,
0.0542,
0.0366,
0.034,
0.033,
0.... | - | 0 |
2OG-FeII_Oxy_2 | 2,133 | 294 | [
0.8663853727144867,
0.7210501640881388,
0.6558837318330989,
0.6150961087669948,
0.602906704172527,
0.593061415846226,
0.5850914205344585,
0.5794655414908579,
0.5738396624472574,
0.5630567276136896,
0.5588373183309893,
0.5527426160337553,
0.5480543834974215,
0.5433661509610876,
0.53586497... | - | 0 |
2OG-FeII_Oxy_3 | 3,108 | 156 | [
0.740990990990991,
0.34234234234234234,
0.19047619047619047,
0.1583011583011583,
0.13996138996138996,
0.12548262548262548,
0.8751608751608752,
0.10456885456885456,
0.09266409266409266,
0.08558558558558559,
0.06016731016731017,
0.05855855855855856,
0.04633204633204633,
0.039897039897039896,... | - | 0 |
2OG-FeII_Oxy_4 | 288 | 149 | [
0.4652777777777778,
0.2673611111111111,
0.18055555555555555,
0.11805555555555555,
0.1111111111111111,
0.1076388888888889,
0.10069444444444445,
0.09722222222222222,
0.08680555555555555,
0.0798611111111111,
0.0798611111111111,
0.0798611111111111,
0.07291666666666667,
0.07291666666666667,
0... | - | 0 |
2OG-FeII_Oxy_5 | 220 | 117 | [
0.759090909090909,
0.09545454545454546,
0.013636363636363636,
0.013636363636363636,
0.013636363636363636,
0.013636363636363636,
0.013636363636363636,
0.00909090909090909,
0.00909090909090909,
0.004545454545454545,
0.004545454545454545,
0.004545454545454545,
0.004545454545454545,
0.00454545... | - | 0 |
2OG-Fe_Oxy_2 | 184 | 231 | [
0.8804347826086957,
0.30978260869565216,
0.14673913043478262,
0.09782608695652174,
0.08152173913043478,
0.07608695652173914,
0.07065217391304347,
0.07065217391304347,
0.06521739130434782,
0.06521739130434782,
0.06521739130434782,
0.06521739130434782,
0.06521739130434782,
0.0652173913043478... | - | 0 |
2TM | 307 | 92 | [
0.7850162866449512,
0.4788273615635179,
0.31596091205211724,
0.2703583061889251,
0.1758957654723127,
0.1465798045602606,
0.13029315960912052,
0.08794788273615635,
0.05863192182410423,
0.05863192182410423,
0.05211726384364821,
0.035830618892508145,
0.029315960912052116,
0.026058631921824105... | - | 0 |
2_5_RNA_ligase2 | 1,321 | 183 | [
0.8879636638909917,
0.7827403482210447,
0.7305071915215746,
0.6858440575321726,
0.6510219530658592,
0.6184708554125662,
0.579106737320212,
0.5526116578349735,
0.4996214988644966,
0.4738834216502649,
0.4595003785011355,
0.4481453444360333,
0.43376230128690385,
0.8728236184708554,
0.909159... | - | 0 |
3-HAO | 324 | 167 | [
0.9320987654320988,
0.9074074074074074,
0.8364197530864198,
0.6018518518518519,
0.3117283950617284,
0.2037037037037037,
0.17592592592592593,
0.16049382716049382,
0.16049382716049382,
0.15432098765432098,
0.15123456790123457,
0.15123456790123457,
0.14506172839506173,
0.1419753086419753,
0... | - | 0 |
3-alpha | 207 | 44 | [
0.2222222222222222,
0.05314009661835749,
0.033816425120772944,
0.024154589371980676,
0.014492753623188406,
0.00966183574879227,
0.00966183574879227,
0.00966183574879227,
0.00966183574879227,
0.00966183574879227,
0.00966183574879227,
0.00966183574879227,
0.014492753623188406,
0.009661835748... | - | 0 |
3-dmu-9_3-mt | 1,276 | 148 | [
0.8275862068965517,
0.4952978056426332,
0.23197492163009403,
0.14576802507836992,
0.09952978056426333,
0.06974921630094044,
0.06583072100313479,
0.04623824451410658,
0.04467084639498432,
0.927115987460815,
0.9443573667711599,
0.9278996865203761,
0.9231974921630094,
0.0384012539184953,
0.... | - | 0 |
3Beta_HSD | 1,220 | 309 | [
0.3795081967213115,
0.20491803278688525,
0.19918032786885245,
0.19672131147540983,
0.19098360655737706,
0.18688524590163935,
0.18442622950819673,
0.18360655737704917,
0.1819672131147541,
0.1819672131147541,
0.18114754098360655,
0.18032786885245902,
0.17950819672131146,
0.17868852459016393,... | - | 0 |
3D | 1,258 | 82 | [
0.4642289348171701,
0.1327503974562798,
0.03577106518282989,
0.017488076311605722,
0.016693163751987282,
0.016693163751987282,
0.013513513513513514,
0.013513513513513514,
0.037360890302066775,
0.00397456279809221,
0.003179650238473768,
0.0023847376788553257,
0.0023847376788553257,
0.002384... | - | 0 |
3H | 338 | 98 | [
0.2455621301775148,
0.05621301775147929,
0.029585798816568046,
0.01775147928994083,
0.014792899408284023,
0.9408284023668639,
0.011834319526627219,
0.005917159763313609,
0.005917159763313609,
0.005917159763313609,
0.005917159763313609,
0.005917159763313609,
0.005917159763313609,
0.00591715... | - | 0 |
3HCDH | 5,000 | 107 | [
0.2844,
0.1526,
0.0786,
0.063,
0.0494,
0.038,
0.0288,
0.0248,
0.0228,
0.0214,
0.0202,
0.0192,
0.0186,
0.018,
0.0174,
0.0172,
0.016,
0.0138,
0.0138,
0.0134,
0.0138,
0.0126,
0.2754,
0.0142,
0.0062,
0.0056,
0.005,
0.0038,
0.0038,
0.0036,
0.0036,
0.0042,
0... | - | 0 |
3HCDH_N | 4,584 | 194 | [
0.45200698080279234,
0.11125654450261781,
0.07286212914485166,
0.06762652705061083,
0.06544502617801047,
0.06479057591623037,
0.06348167539267016,
0.062390924956369984,
0.061300174520069806,
0.04537521815008726,
0.045157068062827224,
0.04450261780104712,
0.04384816753926701,
0.043848167539... | - | 0 |
40S_S4_C | 433 | 49 | [
0.011547344110854504,
0.009237875288683603,
0.006928406466512702,
0.006928406466512702,
0.006928406466512702,
0.006928406466512702,
0.004618937644341801,
0.004618937644341801,
0.004618937644341801,
0,
0,
0,
0,
0,
0,
0,
0.0023094688221709007,
0.0023094688221709007,
0.9445727482678... | - | 0 |
40S_SA_C | 188 | 124 | [
0.05851063829787234,
0.047872340425531915,
0.047872340425531915,
0.026595744680851064,
0.026595744680851064,
0.02127659574468085,
0.015957446808510637,
0.02127659574468085,
0.03723404255319149,
0.010638297872340425,
0.015957446808510637,
0.010638297872340425,
0.015957446808510637,
0.063829... | - | 0 |
4F5 | 459 | 41 | [
0.08932461873638345,
0.06971677559912855,
0.04793028322440087,
0.010893246187363835,
0.010893246187363835,
0.010893246187363835,
0.002178649237472767,
0,
0,
0,
0,
0,
0,
0,
0,
0,
0,
0.030501089324618737,
0.15468409586056645,
0.2549019607843137,
0.3355119825708061,
0.40087145... | - | 0 |
4HBT | 5,000 | 87 | [
0.6156,
0.2288,
0.136,
0.0912,
0.0834,
0.0666,
0.051,
0.0428,
0.0378,
0.033,
0.0312,
0.0274,
0.0238,
0.0228,
0.0218,
0.0212,
0.0206,
0.0196,
0.0196,
0.0188,
0.018,
0.0184,
0.018,
0.0174,
0.0166,
0.0188,
0.1518,
0.706,
0.7434,
0.7956,
0.903,
0.8068,
0.7... | - | 0 |
4HBT_2 | 2,134 | 150 | [
0.5796626054358013,
0.30880974695407687,
0.22586691658856609,
0.1429240862230553,
0.057638238050609185,
0.03608247422680412,
0.031865042174320526,
0.02483598875351453,
0.020618556701030927,
0.019212746016869727,
0.017338331771321464,
0.014526710402999063,
0.014058106841611996,
0.0135895032... | - | 0 |
4HBT_3 | 1,631 | 364 | [
0.9417535254445125,
0.7486204782342122,
0.6223175965665236,
0.5573267933782955,
0.5217657878602084,
0.48497854077253216,
0.42244022072348253,
0.3464132434089516,
0.25076640098099323,
0.19251992642550583,
0.78295524218271,
0.2568976088289393,
0.8252605763335377,
0.08645003065603923,
0.077... | - | 0 |
4HB_MCP_1 | 2,000 | 185 | [
0.581,
0.2315,
0.1455,
0.108,
0.0905,
0.079,
0.0675,
0.0525,
0.0455,
0.038,
0.031,
0.029,
0.0255,
0.0245,
0.0235,
0.022,
0.0215,
0.019,
0.0175,
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0.0175,
0.018,
0.0175,
0.0175,
0.017,
0.017,
0.017,
0.017,
0.0165,
0.0155,
0.0155,
0.0155,
0.0145,
... | - | 0 |
4_1_CTD | 125 | 113 | [
0.56,
0.416,
0.352,
0.32,
0.312,
0.304,
0.296,
0.288,
0.288,
0.288,
0.288,
0.288,
0.288,
0.288,
0.288,
0.288,
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0.896,
0.928,
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0.896,
0.376,
0.352,
0.344,
0.296,
0.248,
0.76,
0.208,
0.184,
0.184,
0.168,
0.128,
0.128,
0.112,
0.10... | - | 0 |
5-FTHF_cyc-lig | 2,232 | 216 | [
0.2956989247311828,
0.22939068100358423,
0.18189964157706093,
0.16308243727598568,
0.15143369175627241,
0.1496415770609319,
0.1478494623655914,
0.21505376344086022,
0.2056451612903226,
0.20206093189964158,
0.135752688172043,
0.13082437275985664,
0.12903225806451613,
0.1267921146953405,
0... | - | 0 |
5-nucleotidase | 252 | 282 | [
0.376984126984127,
0.07936507936507936,
0.06349206349206349,
0.06349206349206349,
0.05952380952380952,
0.05952380952380952,
0.05952380952380952,
0.05952380952380952,
0.05555555555555555,
0.05555555555555555,
0.047619047619047616,
0.047619047619047616,
0.047619047619047616,
0.04761904761904... | - | 0 |
5TM-5TMR_LYT | 577 | 192 | [
0.6516464471403813,
0.5545927209705372,
0.5077989601386482,
0.48700173310225303,
0.4679376083188908,
0.44714038128249567,
0.4072790294627383,
0.7383015597920277,
0.35008665511265163,
0.3223570190641248,
0.2772963604852686,
0.24783362218370883,
0.9358752166377816,
0.17157712305025996,
0.1... | - | 0 |
5_3_exonuc | 2,678 | 104 | [
0.42867811799850636,
0.16878267363704258,
0.08401792382374906,
0.05003734129947722,
0.030246452576549662,
0.017923823749066467,
0.01568334578043316,
0.013816280806572068,
0.0074682598954443615,
0.005227781926811053,
0.0048543689320388345,
0.004480955937266617,
0.004107542942494399,
0.00410... | - | 0 |
5_3_exonuc_N | 2,733 | 190 | [
0.5700695206732528,
0.09366995975118916,
0.05634833516282473,
0.05451884376143432,
0.052323454079765824,
0.052323454079765824,
0.052323454079765824,
0.050128064398097326,
0.04903036955726308,
0.04427369191364801,
0.04354189535309184,
0.04354189535309184,
0.04354189535309184,
0.043541895353... | - | 0 |
5_nucleotid | 575 | 528 | [
0.41043478260869565,
0.39304347826086955,
0.38956521739130434,
0.38956521739130434,
0.3791304347826087,
0.36869565217391304,
0.34956521739130436,
0.3408695652173913,
0.3165217391304348,
0.31130434782608696,
0.30782608695652175,
0.3026086956521739,
0.28695652173913044,
0.2852173913043478,
... | - | 0 |
5_nucleotid_C | 2,587 | 248 | [
0.793196752995748,
0.5523772709702358,
0.49246231155778897,
0.4742945496714341,
0.4541940471588713,
0.4441437959025899,
0.4360262852725164,
0.4321608040201005,
0.42945496714340936,
0.4267491302667182,
0.41824507151140317,
0.916505604947816,
0.4275222265172014,
0.5999226903749517,
0.45380... | - | 0 |
60KD_IMP | 3,168 | 315 | [
0.26136363636363635,
0.0928030303030303,
0.06912878787878787,
0.06439393939393939,
0.0625,
0.059343434343434344,
0.05744949494949495,
0.054924242424242424,
0.05334595959595959,
0.05334595959595959,
0.05303030303030303,
0.052714646464646464,
0.05176767676767677,
0.05176767676767677,
0.051... | - | 0 |
6PF2K | 916 | 239 | [
0.925764192139738,
0.8373362445414847,
0.7609170305676856,
0.7106986899563319,
0.6244541484716157,
0.527292576419214,
0.45633187772925765,
0.34388646288209607,
0.28056768558951967,
0.24563318777292575,
0.2292576419213974,
0.22489082969432314,
0.21943231441048036,
0.21943231441048036,
0.2... | - | 0 |
6PGD | 1,905 | 308 | [
0.08241469816272966,
0.07979002624671916,
0.07979002624671916,
0.07979002624671916,
0.07769028871391076,
0.07139107611548556,
0.07139107611548556,
0.07139107611548556,
0.07139107611548556,
0.07034120734908136,
0.06981627296587926,
0.06981627296587926,
0.06876640419947506,
0.068766404199475... | - | 0 |
7TM-7TMR_HD | 550 | 216 | [
0.8363636363636363,
0.5236363636363637,
0.31636363636363635,
0.18727272727272729,
0.12727272727272726,
0.09636363636363636,
0.06363636363636363,
0.04909090909090909,
0.03636363636363636,
0.034545454545454546,
0.03090909090909091,
0.02909090909090909,
0.02909090909090909,
0.0218181818181818... | - | 0 |
7TMR-DISMED2 | 546 | 151 | [
0.6648351648351648,
0.41208791208791207,
0.30036630036630035,
0.23992673992673993,
0.21245421245421245,
0.20146520146520147,
0.19413919413919414,
0.19230769230769232,
0.184981684981685,
0.163003663003663,
0.14835164835164835,
0.13736263736263737,
0.13003663003663005,
0.12637362637362637,
... | - | 0 |
7TMR-DISM_7TM | 896 | 224 | [
0.8962053571428571,
0.6573660714285714,
0.42745535714285715,
0.27455357142857145,
0.1875,
0.11160714285714286,
0.06808035714285714,
0.05580357142857143,
0.041294642857142856,
0.033482142857142856,
0.020089285714285716,
0.017857142857142856,
0.015625,
0.013392857142857142,
0.0100446428571... | - | 0 |
7TMR-HDED | 524 | 352 | [
0.7175572519083969,
0.37213740458015265,
0.31297709923664124,
0.2595419847328244,
0.24427480916030533,
0.22709923664122136,
0.22709923664122136,
0.18702290076335878,
0.1450381679389313,
0.1297709923664122,
0.07251908396946564,
0.061068702290076333,
0.061068702290076333,
0.06106870229007633... | - | 0 |
7TM_GPCR_Srab | 218 | 341 | [
0.8211009174311926,
0.7660550458715596,
0.7064220183486238,
0.7064220183486238,
0.7018348623853211,
0.6926605504587156,
0.6926605504587156,
0.6880733944954128,
0.6743119266055045,
0.6697247706422018,
0.6651376146788991,
0.6651376146788991,
0.6605504587155964,
0.6559633027522935,
0.642201... | - | 0 |
7TM_GPCR_Srbc | 166 | 283 | [
0.6265060240963856,
0.6024096385542169,
0.5301204819277109,
0.5,
0.45180722891566266,
0.41566265060240964,
0.3855421686746988,
0.3373493975903614,
0.3192771084337349,
0.3072289156626506,
0.30120481927710846,
0.30120481927710846,
0.2891566265060241,
0.2710843373493976,
0.25903614457831325... | - | 0 |
7TM_GPCR_Srd | 397 | 295 | [
0.8463476070528967,
0.72544080604534,
0.6498740554156172,
0.6045340050377834,
0.5717884130982368,
0.5541561712846348,
0.5415617128463476,
0.5289672544080605,
0.5289672544080605,
0.5239294710327456,
0.5214105793450882,
0.5214105793450882,
0.5214105793450882,
0.5214105793450882,
0.51889168... | - | 0 |
End of preview.
LineageFlow Pfam Assets
This dataset contains the preprocessed Pfam assets used by the released LineageFlow inference pipeline.
Contents
pfam_priors_asr_mad/: family-specific ASR Dirichlet priors.pfam_gap_rates/: family-specific alignment gap statistics.pfam_fastas_clean/: cleaned Pfam family alignments.pfam_pi_smooth_tau0.5_gap060_gt80_020.csv: family sampling distribution.pfam_priors_keep_ids_gap060_gt80_020.txt: family keep list used by the default sampler.
Usage
hf download jinxbye/LineageFlow-assets \
--repo-type dataset \
--local-dir dataset
The inference scripts expect these assets under dataset/ by default. All paths can be overridden from the command line.
Notes
These files are preprocessed from Pfam family alignments. Please follow the license and usage terms of the original Pfam resource when using the data.
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