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SLAC

SLAC usage summary as of Mon Apr 15 00:00:01 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (4894 days)92479 18.90 53.07253-684 490.953251-11903 21.25 6.16 0.16- 7571.98

Top 10

Models usedTest results by p-value
ModelTimes Used% Used
HKY8547511 51.4
TRN9313462 14.6
REV9543 10.3
F814265 4.6
0102301079 1.2
0120121076 1.2
0122121060 1.1
0102321010 1.1
012232856 0.9
012032760 0.8
p-valueSelected/100 codonsTimes Used% Used
PositiveNegative
0.1 0.6 16.277137 83.4
0.05 0.5 14.111486 12.4
0.2 0.9 18.41381 1.5
0.25 2.2 24.8776 0.8
0.5 4.3 55.2659 0.7
0.01 0.8 9.6540 0.6
0.15 2.2 15.2115 0.1
0.3 0.2 18.151 0.1
0.0024 0.0 2.345 0.0
0.0048 0.0 0.533 0.0

FEL

FEL usage summary as of Mon Apr 15 00:00:13 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (3994 days)104431 26.15 44.59243-787 488.423251-11276 182.27460-51470

Top 10

Models usedTest results by p-value
ModelTimes Used% Used
HKY8547603 45.6
REV13414 12.8
TRN9310164 9.7
F815467 5.2
0100003929 3.8
0102322094 2.0
0120121584 1.5
0122121406 1.3
0102301270 1.2
0120321005 1.0
p-valueSelected/100 codonsTimes Used% Used
PositiveNegative
0.1 1.1 23.984473 80.9
0.05 0.9 19.115415 14.8
0.2 2.1 29.72137 2.0
0.25 3.1 31.9942 0.9
0.01 0.5 15.1530 0.5
0.5 6.0 43.1215 0.2
0.15 2.2 22.9182 0.2
0.0024 0.0 7.0102 0.1
0.3 1.2 23.364 0.1
0.06 0.3 22.560 0.1

REL

REL usage summary as of Mon Apr 15 00:00:26 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (3993 days)58372 14.62 20.71162-110 488.513231-11542 389.041110-54132

Top 10

Models usedTest results by Bayes Factor
ModelTimes Used% Used
HKY8531083 53.2
REV5725 9.8
F813554 6.1
TRN933376 5.8
0100002345 4.0
0120121240 2.1
001101730 1.3
012212720 1.2
010232709 1.2
012032623 1.1
Bayes FactorSelected/100 codonsTimes Used% Used
PositiveNegative
50 4.3 27.852765 90.4
100 4.4 22.11322 2.3
90 19.2 11.2901 1.5
20 7.2 36.0826 1.4
95 2.4 31.6784 1.3
10 5.8 31.7750 1.3
40 2.5 24.4145 0.2
25 7.8 34.7115 0.2
80 3.0 28.9111 0.2
30 9.8 20.693 0.2

TOGGLE

Toggle usage summary as of Mon Apr 15 00:00:33 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (5074 days)1095 0.22 47.56377-150 567.7435016-3789 3755.66196627-42841

Model Select.

ModelSelection usage summary as of Mon Apr 15 00:00:35 2024 PST.

TimeframeAnalysesSequencesSites
TotalPer 24 hrsMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (3994 days)103015 25.79 43.82223-656 523.503251-11935

Top 10 Models

ModelTimes selected% selected
HKY8524737 24.0
TRN9313124 12.7
F819029 8.8
0102324394 4.3
0120123621 3.5
0122123103 3.0
0102302487 2.4
0120322461 2.4
0122322439 2.4
0011012123 2.1

Protein Model Select.

ModelSelectionP usage summary as of Mon Apr 15 00:00:44 2024 PST.

TimeframeAnalysesSequencesSites
TotalPer 24 hrsMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (5795 days)4241 0.73 46.17262-500 1067.064703-18120

Top 10 Models

ModelTimes selected% selected
JTT (Jones,Taylor,Thornton)+F570 13.4
JTT (Jones,Taylor,Thornton)412 9.7
HIV (within host)+F412 9.7
BLOSUM62+F341 8.0
WAG (Whelan and Goldman)+F341 8.0
IAV (Influenza A virus)+F337 7.9
WAG (Whelan and Goldman)245 5.8
IAV (Influenza A virus)228 5.4
HIV (between hosts)+F180 4.2
BLOSUM62170 4.0

GARD

GARD usage summary as of Mon Apr 15 00:00:46 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days1 0.03101010-10121501215012150-12150474747-47
Lifetime (6347 days)76518 12.06 26.98182-300 2048.17111620-46625 1290.553861-272974

Top 10 models usedDistribution of delta AICNumber of inferred breakpoints
ModelTimes Used% Used
064829 84.7
HKY855991 7.8
010000860 1.1
REV830 1.1
TRN93558 0.7
F81520 0.7
010232226 0.3
012212218 0.3
010230182 0.2
012232144 0.2
delta AIC rangeTimes found% found
0-1027920 36.5
10-203051 4.0
20-302447 3.2
30-402280 3.0
40-501877 2.5
50-601982 2.6
60-701460 1.9
70-801325 1.7
80-901228 1.6
90-1001093 1.4
> 10031855 41.6
Number of breakpointsTimes found% found
023499 30.7
119372 25.3
212115 15.8
37048 9.2
44291 5.6
52950 3.9
61905 2.5
71419 1.9
8940 1.2
9764 1.0
≥ 102215 2.9

SBP

SBP usage summary as of Mon Apr 15 00:00:55 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (3994 days)21574 5.40 50.79252-656 21.8811-45015 699.50450-683633

Top 10 models usedDistribution of IC improvement
ModelTimes Used% Used
HKY8515680 72.7
REV1315 6.1
010000565 2.6
F81503 2.3
TRN93502 2.3
0123455326 1.5
010232215 1.0
012012137 0.6
0112304567128 0.6
010230105 0.5
IC improvement rangeTimes found% found
0-109314 43.2
10-20920 4.3
20-30811 3.8
30-40661 3.1
40-50532 2.5
50-60418 1.9
60-70366 1.7
70-80380 1.8
80-90297 1.4
90-100329 1.5
> 1007546 35.0

PARRIS

PARRIS usage summary as of Mon Apr 15 00:00:59 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (6102 days)14661 2.40 20.08153-75 491.593297-11903 424.601361-48648

Top 10 models usedDistribution of p-values
ModelTimes Used% Used
HKY858319 56.7
F811080 7.4
REV1011 6.9
TRN93777 5.3
010000429 2.9
012012262 1.8
001101166 1.1
012212155 1.1
012032137 0.9
010230125 0.9
p-values rangeTimes found% found
0-0.12673 18.2
0.1-0.2518 3.5
0.2-0.3478 3.3
0.3-0.4373 2.5
0.4-0.5332 2.3
0.5-0.6393 2.7
0.6-0.7374 2.6
0.7-0.8361 2.5
0.8-0.9355 2.4
0.9-18804 60.1

GA Branch

GABranch usage summary as of Mon Apr 15 00:01:01 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (6095 days)11909 1.95 13.75123-30 522.383339-11628 5645.2915151-889396

Top 10 models usedDistribution of the number of dN/dS classes
ModelTimes Used% Used
HKY858636 72.5
REV614 5.2
010000568 4.8
F81415 3.5
TRN93285 2.4
012012131 1.1
001101107 0.9
01221264 0.5
01001263 0.5
00001060 0.5
the number of dN/dS classes rangeTimes found% found
199 0.8
24323 36.3
34029 33.8
42248 18.9
5784 6.6
6239 2.0
7119 1.0
840 0.3
928 0.2

CMS

CMS usage summary as of Mon Apr 15 00:01:03 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (5186 days)3439 0.66 33.10243-120 574.973527-1127620640.63404359-3262277

Distribution of mBIC improvementNumber of inferred rate classes
mBIC improvement rangeTimes found% found
0-10193 5.6
10-20152 4.4
20-30199 5.8
30-40234 6.8
40-50256 7.4
50-60184 5.4
60-70180 5.2
70-80133 3.9
80-90181 5.3
90-100112 3.3
> 1001615 47.0
Number of rate classesTimes found% found
10 0.0
22122 61.7
3753 21.9
4315 9.2
5139 4.0
656 1.6
717 0.5
82 0.1
91 0.0
≥ 1034 1.0

DEPS

DEPS usage summary as of Mon Apr 15 00:01:04 2024 PST.

TimeframeAnalysesSequencesSitesCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (5065 days)3766 0.74 35.79313-100 1082.485569-11100 473.301412-31585

Subtyping

SCUEAL usage summary as of Mon Apr 15 00:01:06 2024 PST.

Timeframe Analyses Sequences
TotalPer 24 hrsMeanMedianRange
Last 1 days73767376.00 88.4040-500
Last 7 days73761053.71 88.4040-500
Last 30 days7376245.87 88.4040-500
Lifetime (5400 days)8680 1.61 91.9250-500

Top 10 Subtypes (out of 797859 sequences)

SubtypesTimes found% found
B314265 39.4
C153099 19.2
G52864 6.6
A147172 5.9
Complex33834 4.2
AE20841 2.6
D19948 2.5
CRF1412971 1.6
F112729 1.6
B,C recombinant9957 1.2

Coevolution

BGM usage summary as of Mon Apr 15 00:01:09 2024 PST.

TimeframeAnalysesSitesInteracting pairs/siteCPU time
TotalPer 24 hrsMeanMedianRangeMeanMedianRangeMeanMedianRange
Last 1 days0
Last 7 days0
Last 30 days0
Lifetime (3994 days)8881 2.22 65.10300-1033 2.25 0.98 0.01-263 2866.47920-2900666

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