Mercurial > repos > iuc > hyphy_prime

comparison test-data/summary/nsp8.MEME.json @ 18:966ba45cbd44 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
author iuc
date Wed, 09 Jun 2021 07:11:05 +0000
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17:6d29207a32c5 18:966ba45cbd44
1 {
2 "MLE":{
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204 },
205 "headers": [
206 ["alpha;", "Synonymous substitution rate at a site"],
207 ["&beta;<sup>-</sup>", "Non-synonymous substitution rate at a site for the negative/neutral evolution component"],
208 ["p<sup>-</sup>", "Mixture distribution weight allocated to &beta;<sup>-</sup>; loosely -- the proportion of the tree evolving neutrally or under negative selection"],
209 ["&beta;<sup>+</sup>", "Non-synonymous substitution rate at a site for the positive/neutral evolution component"],
210 ["p<sup>+</sup>", "Mixture distribution weight allocated to &beta;<sup>+</sup>; loosely -- the proportion of the tree evolving neutrally or under positive selection"],
211 ["LRT", "Likelihood ratio test statistic for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
212 ["p-value", "Asymptotic p-value for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
213 ["# branches under selection", "The (very approximate and rough) estimate of how many branches may have been under selection at this site, i.e., had an empirical Bayes factor of 100 or more for the &beta;<sup>+</sup> rate"],
214 ["Total branch length", "The total length of branches contributing to inference at this site, and used to scale dN-dS"],
215 ["MEME LogL", "Site Log-likelihood under the MEME model"],
216 ["FEL LogL", "Site Log-likelihood under the FEL model"]
217 ]
218 },
219 "analysis":{
220 "authors":"Sergei L. Kosakovsky Pond, Steven Weaver",
221 "citation":"Detecting Individual Sites Subject to Episodic Diversifying Selection. _PLoS Genet_ 8(7): e1002764.",
222 "contact":"spond@temple.edu",
223 "info":"MEME (Mixed Effects Model of Evolution)\n estimates a site-wise synonymous (&alpha;) and a two-category mixture of non-synonymous\n (&beta;-, with proportion p-, and &beta;+ with proportion [1-p-]) rates, and\n uses a likelihood ratio test to determine if &beta;+ > &alpha; at a site.\n The estimates aggregate information over a proportion of branches at a site,\n so the signal is derived from\n episodic diversification, which is a combination of strength of selection [effect size] and\n the proportion of the tree affected. A subset of branches can be selected\n for testing as well, in which case an additional (nuisance) parameter will be\n inferred -- the non-synonymous rate on branches NOT selected for testing. Multiple partitions within a NEXUS file are also supported\n for recombination - aware analysis.\n ",
224 "requirements":"in-frame codon alignment and a phylogenetic tree",
225 "version":"2.1.2"
226 },
227 "branch attributes":{
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351 "REFERENCE":{
352 "Global MG94xREV":0,
353 "Nucleotide GTR":0,
354 "original name":"REFERENCE"
355 },
356 "epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021":{
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411 "epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021":{
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418 "Nucleotide GTR":0,
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420 },
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423 "Nucleotide GTR":0.00168443927661716,
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428 "Nucleotide GTR":0.001685171120971631,
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430 },
431 "epi_isl_1652118_hCoV_19_Singapore_575_2021":{
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434 "original name":"epi_isl_1652118/hCoV-19/Singapore/575/2021"
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436 "gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human":{
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440 },
441 "gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human":{
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445 },
446 "gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human":{
447 "Global MG94xREV":0.005257318387802578,
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449 "original name":"gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human"
450 },
451 "gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human":{
452 "Global MG94xREV":0.003479916219393658,
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454 "original name":"gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human"
455 },
456 "gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human":{
457 "Global MG94xREV":0.003464849068174243,
458 "Nucleotide GTR":0.003372774424630234,
459 "original name":"gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human"
460 },
461 "gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human":{
462 "Global MG94xREV":0.003473329349813396,
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464 "original name":"gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human"
465 },
466 "gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human":{
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470 },
471 "gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human":{
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474 "original name":"gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human"
475 },
476 "gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human":{
477 "Global MG94xREV":0.005236219930619085,
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479 "original name":"gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human"
480 },
481 "gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human":{
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483 "Nucleotide GTR":0.003372774424770855,
484 "original name":"gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human"
485 },
486 "gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human":{
487 "Global MG94xREV":0.001735902731024219,
488 "Nucleotide GTR":0.001686266012390882,
489 "original name":"gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human"
490 },
491 "gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human":{
492 "Global MG94xREV":0.00348009744950267,
493 "Nucleotide GTR":0.003374436490976879,
494 "original name":"gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human"
495 },
496 "gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human":{
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499 "original name":"gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human"
500 },
501 "gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human":{
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503 "Nucleotide GTR":0.003374190741831846,
504 "original name":"gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human"
505 },
506 "gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human":{
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509 "original name":"gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human"
510 }
511 },
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517 "EBF site 103 (partition 1)":{
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525 "EBF site 123 (partition 1)":{
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529 "EBF site 125 (partition 1)":{
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533 "EBF site 126 (partition 1)":{
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537 "EBF site 128 (partition 1)":{
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541 "EBF site 133 (partition 1)":{
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545 "EBF site 134 (partition 1)":{
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549 "EBF site 14 (partition 1)":{
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553 "EBF site 140 (partition 1)":{
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561 "EBF site 145 (partition 1)":{
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565 "EBF site 146 (partition 1)":{
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569 "EBF site 148 (partition 1)":{
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573 "EBF site 15 (partition 1)":{
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577 "EBF site 156 (partition 1)":{
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581 "EBF site 16 (partition 1)":{
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621 "EBF site 190 (partition 1)":{
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669 "EBF site 51 (partition 1)":{
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677 "EBF site 67 (partition 1)":{
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681 "EBF site 70 (partition 1)":{
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689 "EBF site 74 (partition 1)":{
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692 },
693 "EBF site 76 (partition 1)":{
694 "attribute type":"branch label",
695 "display order":200
696 },
697 "EBF site 8 (partition 1)":{
698 "attribute type":"branch label",
699 "display order":200
700 },
701 "EBF site 81 (partition 1)":{
702 "attribute type":"branch label",
703 "display order":200
704 },
705 "EBF site 83 (partition 1)":{
706 "attribute type":"branch label",
707 "display order":200
708 },
709 "EBF site 85 (partition 1)":{
710 "attribute type":"branch label",
711 "display order":200
712 },
713 "EBF site 88 (partition 1)":{
714 "attribute type":"branch label",
715 "display order":200
716 },
717 "EBF site 89 (partition 1)":{
718 "attribute type":"branch label",
719 "display order":200
720 },
721 "EBF site 9 (partition 1)":{
722 "attribute type":"branch label",
723 "display order":200
724 },
725 "EBF site 96 (partition 1)":{
726 "attribute type":"branch label",
727 "display order":200
728 },
729 "EBF site 99 (partition 1)":{
730 "attribute type":"branch label",
731 "display order":200
732 },
733 "Global MG94xREV":{
734 "attribute type":"branch length",
735 "display order":1
736 },
737 "Nucleotide GTR":{
738 "attribute type":"branch length",
739 "display order":0
740 },
741 "original name":{
742 "attribute type":"node label",
743 "display order":-1
744 }
745 }
746 },
747 "data partitions":{
748 "0":{
749 "coverage": [
750 [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197]
751 ],
752 "name":"meme.filter.default"
753 }
754 },
755 "fits":{
756 "Global MG94xREV":{
757 "AIC-c":2512.962001126494,
758 "Equilibrium frequencies": [
759 [0.03825952761243274],
760 [0.01370948533169502],
761 [0.0238326285579188],
762 [0.05169206288834598],
763 [0.02910782227384961],
764 [0.01043016700423795],
765 [0.01813184740308045],
766 [0.03932728586627101],
767 [0.01035067712195123],
768 [0.003708944282165923],
769 [0.006447644771501305],
770 [0.01398469573761802],
771 [0.0283653688047424],
772 [0.01016412464618009],
773 [0.01766935821790241],
774 [0.03832416445281453],
775 [0.01521889661505549],
776 [0.005453366858635389],
777 [0.009480156518454269],
778 [0.02056209812326697],
779 [0.01157852606970437],
780 [0.004148917752546374],
781 [0.007212496554133422],
782 [0.01564363009947405],
783 [0.00411729822204095],
784 [0.001475345962268018],
785 [0.002564747797779777],
786 [0.005562840210150803],
787 [0.01128319250724396],
788 [0.004043091272315801],
789 [0.007028527343480687],
790 [0.01524460789411934],
791 [0.03592403244011121],
792 [0.01287261047188149],
793 [0.02237780168434643],
794 [0.04853659885475865],
795 [0.02733097915424774],
796 [0.009793473186905268],
797 [0.01702501611901085],
798 [0.03692661100139533],
799 [0.009718835644621534],
800 [0.003482537371104292],
801 [0.0060540580187001],
802 [0.01313102107355921],
803 [0.02663384763763138],
804 [0.009543670983435077],
805 [0.01659075888876379],
806 [0.0359847236220365],
807 [0.00848480075962617],
808 [0.03199221880690793],
809 [0.01801483181642438],
810 [0.006455230577911434],
811 [0.01122180073845716],
812 [0.02433965804833868],
813 [0.002295465694104339],
814 [0.003990447484454917],
815 [0.008655128485630147],
816 [0.01755532734880559],
817 [0.00629057695692368],
818 [0.01093556617204019],
819 [0.02371882618448924]
820 ],
821 "Log Likelihood":-1205.058976374832,
822 "Rate Distributions":{
823 "non-synonymous/synonymous rate ratio for *background*": [
824 [0.4929148115209321, 1]
825 ],
826 "non-synonymous/synonymous rate ratio for *test*": [
827 [24.31954771499909, 1]
828 ]
829 },
830 "display order":1,
831 "estimated parameters":51
832 },
833 "Nucleotide GTR":{
834 "AIC-c":2633.0046471406,
835 "Equilibrium frequencies": [
836 [0.3251262626262627],
837 [0.1799242424242424],
838 [0.2026515151515151],
839 [0.2922979797979798]
840 ],
841 "Log Likelihood":-1247.247280799152,
842 "Rate Distributions":{
843 "Substitution rate from nucleotide A to nucleotide C":0,
844 "Substitution rate from nucleotide A to nucleotide G":1,
845 "Substitution rate from nucleotide A to nucleotide T":0.3101631549852981,
846 "Substitution rate from nucleotide C to nucleotide G":1.129990583516242,
847 "Substitution rate from nucleotide C to nucleotide T":2.723444388603395,
848 "Substitution rate from nucleotide G to nucleotide T":1.720896006888861
849 },
850 "display order":0,
851 "estimated parameters":69
852 }
853 },
854 "input":{
855 "file name":"/home/aglucaci/SARS-CoV-2/clades/B-1-617/nsp8.combined.fas",
856 "number of sequences":32,
857 "number of sites":198,
858 "partition count":1,
859 "trees":{
860 "0":"(REFERENCE,(gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human,epi_isl_1589870_hCoV_19_India_WB_1931501009078_2021)Node20,gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human,epi_isl_1589885_hCoV_19_India_WB_1931300250528_2021,(epi_isl_1615709_hCoV_19_England_CAMC_14E792B_2021,gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human)Node4,epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021,gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human,gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human,epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021,gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human,(gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human,gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human,epi_isl_1384851_hCoV_19_India_MH_NCCS_ND13683_2021)Node38,epi_isl_1357692_hCoV_19_India_WB_1931500870015_2021,gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human,epi_isl_1533793_hCoV_19_India_MH_NCCS_CHN21027888_2021,gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human,epi_isl_1415270_hCoV_19_India_MH_NCCS_BJ2_2021,epi_isl_1543980_hCoV_19_Singapore_490_2021,epi_isl_1632256_hCoV_19_England_RAND_14E1D70_2021,gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human,epi_isl_1573247_hCoV_19_Germany_un_RKI_I_068985_2021,gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human,gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human,epi_isl_1652118_hCoV_19_Singapore_575_2021,epi_isl_1652105_hCoV_19_Singapore_561_2021,gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human,gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human,epi_isl_1416968_hCoV_19_Guadeloupe_IPP06229_2021,epi_isl_1544068_hCoV_19_India_MH_NCCS_RT231527_2021)"
861 }
862 },
863 "tested":{
864 "0":{
865 "Node20":"test",
866 "Node38":"background",
867 "Node4":"test",
868 "REFERENCE":"background",
869 "epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021":"background",
870 "epi_isl_1357692_hCoV_19_India_WB_1931500870015_2021":"background",
871 "epi_isl_1384851_hCoV_19_India_MH_NCCS_ND13683_2021":"background",
872 "epi_isl_1415270_hCoV_19_India_MH_NCCS_BJ2_2021":"background",
873 "epi_isl_1416968_hCoV_19_Guadeloupe_IPP06229_2021":"background",
874 "epi_isl_1533793_hCoV_19_India_MH_NCCS_CHN21027888_2021":"background",
875 "epi_isl_1543980_hCoV_19_Singapore_490_2021":"background",
876 "epi_isl_1544068_hCoV_19_India_MH_NCCS_RT231527_2021":"background",
877 "epi_isl_1573247_hCoV_19_Germany_un_RKI_I_068985_2021":"background",
878 "epi_isl_1589870_hCoV_19_India_WB_1931501009078_2021":"background",
879 "epi_isl_1589885_hCoV_19_India_WB_1931300250528_2021":"background",
880 "epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021":"background",
881 "epi_isl_1615709_hCoV_19_England_CAMC_14E792B_2021":"background",
882 "epi_isl_1632256_hCoV_19_England_RAND_14E1D70_2021":"background",
883 "epi_isl_1652105_hCoV_19_Singapore_561_2021":"background",
884 "epi_isl_1652118_hCoV_19_Singapore_575_2021":"background",
885 "gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human":"background",
886 "gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human":"background",
887 "gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human":"background",
888 "gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human":"background",
889 "gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human":"background",
890 "gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human":"background",
891 "gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human":"background",
892 "gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human":"background",
893 "gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human":"background",
894 "gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human":"background",
895 "gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human":"background",
896 "gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human":"background",
897 "gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human":"background",
898 "gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human":"background",
899 "gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human":"background"
900 }
901 },
902 "timers":{
903 "MEME analysis":{
904 "order":2,
905 "timer":5
906 },
907 "Model fitting":{
908 "order":1,
909 "timer":5
910 },
911 "Total time":{
912 "order":0,
913 "timer":10
914 }
915 }
916 }