Pico-PLAZA 3.0 : Interactive Phylogenetics Module

Interactive Phylogenetics Module

Gene Id: PI00G42800

Contact Settings

If more than 50 genes/sequences are provided as input, then the associated running time could be too to stall the browser.
Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes.
After processing you will be send an email with a link to the created phylogenetic tree.

Email Address (optional)

Genes

Notice (8): Undefined index: common_name [APP/View/Analysis/custom_tree_creation.ctp, line 169]Code Context                                                    echo "<td><input type='checkbox' name='selected_genes[]' value='".$similarity_hit['gene_id']."' ".$checked." /></td>\n";
                                                    echo "<td>".$this->Html->link($similarity_hit_gene,array("controller"=>"genes","action"=>"view",$similarity_hit_gene),array("target"=>"_blank"))."</td>\n";
                                                    echo "<td>".$this->Html->link($similarity_hit['common_name'],array("controller"=>"organism","action"=>"view",urlencode($similarity_hit['common_name'])))."</td>\n";
$viewFile = '/xtras/group/biocomp/plaza/versions/plaza_pico_03/app/View/Analysis/custom_tree_creation.ctp'
$dataForView = array(
	'allowed_extra_sequences_types' => array(
		'aa' => 'Protein',
		'dna' => 'DNA'
	),
	'allowed_editing_methods' => array(
		'column' => 'Positions only',
		'row' => 'Genes only',
		'column_row' => 'Positions and Genes',
		'none' => 'No editing'
	),
	'allowed_tree_programs' => array(
		'fasttree' => 'FastTree',
		'iqtree' => 'IQ-TREE (includes model testing)',
		'raxml' => 'RAxML',
		'phyml' => 'PhyML'
	),
	'allowed_msa_programs' => array(
		'muscle' => 'MUSCLE',
		'mafft' => 'MAFFT'
	),
	'allowed_number_blasthits' => array(
		(int) 0 => 'all',
		(int) 1 => (int) 20,
		(int) 2 => (int) 10,
		(int) 3 => (int) 5,
		(int) 4 => (int) 1
	),
	'similarity_hits_genes' => array(
		'PI00G42800' => array(
			'gene_id' => 'PI00G42800',
			'e_value' => '0.0',
			'bit_score' => '709',
			'alignment_length' => '342',
			'identity_percentage' => '100.00',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.07g03960' => array(
			'gene_id' => 'RCC4223.07g03960',
			'e_value' => '0.0',
			'bit_score' => '666',
			'alignment_length' => '342',
			'identity_percentage' => '92.69',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.03g08350' => array(
			'gene_id' => 'RCC4223.03g08350',
			'e_value' => '3e-74',
			'bit_score' => '238',
			'alignment_length' => '342',
			'identity_percentage' => '39.18',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G29440' => array(
			'gene_id' => 'PI00G29440',
			'e_value' => '2e-70',
			'bit_score' => '229',
			'alignment_length' => '342',
			'identity_percentage' => '37.43',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.07g03950' => array(
			'gene_id' => 'RCC4223.07g03950',
			'e_value' => '4e-59',
			'bit_score' => '201',
			'alignment_length' => '361',
			'identity_percentage' => '37.40',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G42810' => array(
			'gene_id' => 'PI00G42810',
			'e_value' => '4e-55',
			'bit_score' => '190',
			'alignment_length' => '328',
			'identity_percentage' => '38.41',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G15880' => array(
			'gene_id' => 'PI00G15880',
			'e_value' => '3e-53',
			'bit_score' => '191',
			'alignment_length' => '315',
			'identity_percentage' => '36.19',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.02g06100' => array(
			'gene_id' => 'RCC4223.02g06100',
			'e_value' => '2e-52',
			'bit_score' => '188',
			'alignment_length' => '315',
			'identity_percentage' => '35.87',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.01g01950' => array(
			'gene_id' => 'RCC4223.01g01950',
			'e_value' => '9e-52',
			'bit_score' => '186',
			'alignment_length' => '324',
			'identity_percentage' => '35.49',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G33460' => array(
			'gene_id' => 'PI00G33460',
			'e_value' => '6e-51',
			'bit_score' => '185',
			'alignment_length' => '320',
			'identity_percentage' => '36.25',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G03960' => array(
			'gene_id' => 'PI00G03960',
			'e_value' => '1e-49',
			'bit_score' => '176',
			'alignment_length' => '324',
			'identity_percentage' => '36.73',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.03g07040' => array(
			'gene_id' => 'RCC4223.03g07040',
			'e_value' => '3e-49',
			'bit_score' => '174',
			'alignment_length' => '325',
			'identity_percentage' => '32.31',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_009G00520' => array(
			'gene_id' => 'CNC64A_009G00520',
			'e_value' => '2e-47',
			'bit_score' => '168',
			'alignment_length' => '239',
			'identity_percentage' => '37.24',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G30540' => array(
			'gene_id' => 'PI00G30540',
			'e_value' => '3e-46',
			'bit_score' => '166',
			'alignment_length' => '323',
			'identity_percentage' => '31.58',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP07G01900' => array(
			'gene_id' => 'TP07G01900',
			'e_value' => '2e-39',
			'bit_score' => '145',
			'alignment_length' => '309',
			'identity_percentage' => '33.66',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_12G00880' => array(
			'gene_id' => 'PTI_12G00880',
			'e_value' => '2e-35',
			'bit_score' => '142',
			'alignment_length' => '308',
			'identity_percentage' => '32.79',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G47900' => array(
			'gene_id' => 'PI00G47900',
			'e_value' => '7e-35',
			'bit_score' => '137',
			'alignment_length' => '319',
			'identity_percentage' => '32.29',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G65760' => array(
			'gene_id' => 'PI00G65760',
			'e_value' => '1e-34',
			'bit_score' => '135',
			'alignment_length' => '321',
			'identity_percentage' => '31.15',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.01g05230' => array(
			'gene_id' => 'RCC4223.01g05230',
			'e_value' => '1e-34',
			'bit_score' => '136',
			'alignment_length' => '319',
			'identity_percentage' => '31.66',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0121G00040' => array(
			'gene_id' => 'ES0121G00040',
			'e_value' => '5e-34',
			'bit_score' => '134',
			'alignment_length' => '304',
			'identity_percentage' => '31.25',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G18880' => array(
			'gene_id' => 'VC00G18880',
			'e_value' => '7e-34',
			'bit_score' => '131',
			'alignment_length' => '321',
			'identity_percentage' => '31.46',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G18900' => array(
			'gene_id' => 'VC00G18900',
			'e_value' => '7e-34',
			'bit_score' => '132',
			'alignment_length' => '321',
			'identity_percentage' => '31.78',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0121G00230' => array(
			'gene_id' => 'ES0121G00230',
			'e_value' => '1e-32',
			'bit_score' => '129',
			'alignment_length' => '320',
			'identity_percentage' => '29.69',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G91850' => array(
			'gene_id' => 'CV00G91850',
			'e_value' => '9e-32',
			'bit_score' => '125',
			'alignment_length' => '315',
			'identity_percentage' => '32.70',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'HE0000G06670' => array(
			'gene_id' => 'HE0000G06670',
			'e_value' => '5e-31',
			'bit_score' => '122',
			'alignment_length' => '290',
			'identity_percentage' => '31.72',
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0059G00510' => array(
			'gene_id' => 'ES0059G00510',
			'e_value' => '2e-29',
			'bit_score' => '124',
			'alignment_length' => '193',
			'identity_percentage' => '39.38',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_005G01530' => array(
			'gene_id' => 'CNC64A_005G01530',
			'e_value' => '1e-28',
			'bit_score' => '119',
			'alignment_length' => '316',
			'identity_percentage' => '31.96',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0012G00100' => array(
			'gene_id' => 'AA0012G00100',
			'e_value' => '6e-27',
			'bit_score' => '111',
			'alignment_length' => '314',
			'identity_percentage' => '29.62',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_001G03160' => array(
			'gene_id' => 'CNC64A_001G03160',
			'e_value' => '1e-26',
			'bit_score' => '112',
			'alignment_length' => '317',
			'identity_percentage' => '30.60',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G23920' => array(
			'gene_id' => 'AP00G23920',
			'e_value' => '4e-26',
			'bit_score' => '110',
			'alignment_length' => '315',
			'identity_percentage' => '27.62',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_081G00020' => array(
			'gene_id' => 'CNC64A_081G00020',
			'e_value' => '6e-23',
			'bit_score' => '99.4',
			'alignment_length' => '215',
			'identity_percentage' => '33.95',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_025G00190' => array(
			'gene_id' => 'CNC64A_025G00190',
			'e_value' => '2e-22',
			'bit_score' => '99.4',
			'alignment_length' => '215',
			'identity_percentage' => '33.95',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR03G07040' => array(
			'gene_id' => 'CR03G07040',
			'e_value' => '2e-22',
			'bit_score' => '102',
			'alignment_length' => '315',
			'identity_percentage' => '27.30',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR02G10720' => array(
			'gene_id' => 'CR02G10720',
			'e_value' => '9e-22',
			'bit_score' => '97.8',
			'alignment_length' => '324',
			'identity_percentage' => '27.78',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0017G01560' => array(
			'gene_id' => 'AA0017G01560',
			'e_value' => '7e-21',
			'bit_score' => '94.0',
			'alignment_length' => '314',
			'identity_percentage' => '31.21',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0280263' => array(
			'gene_id' => 'DDB_G0280263',
			'e_value' => '8e-21',
			'bit_score' => '94.4',
			'alignment_length' => '307',
			'identity_percentage' => '27.69',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0007G00910' => array(
			'gene_id' => 'AA0007G00910',
			'e_value' => '2e-20',
			'bit_score' => '92.8',
			'alignment_length' => '319',
			'identity_percentage' => '29.47',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR03G06520' => array(
			'gene_id' => 'CR03G06520',
			'e_value' => '5e-20',
			'bit_score' => '93.2',
			'alignment_length' => '338',
			'identity_percentage' => '28.70',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0002G06930' => array(
			'gene_id' => 'AA0002G06930',
			'e_value' => '2e-19',
			'bit_score' => '90.9',
			'alignment_length' => '285',
			'identity_percentage' => '28.07',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_019G01080' => array(
			'gene_id' => 'CNC64A_019G01080',
			'e_value' => '6e-19',
			'bit_score' => '91.7',
			'alignment_length' => '202',
			'identity_percentage' => '32.67',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_100043g13' => array(
			'gene_id' => 'Naga_100043g13',
			'e_value' => '1e-18',
			'bit_score' => '90.5',
			'alignment_length' => '315',
			'identity_percentage' => '27.94',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_17G02230' => array(
			'gene_id' => 'OM_17G02230',
			'e_value' => '1e-17',
			'bit_score' => '87.8',
			'alignment_length' => '345',
			'identity_percentage' => '25.51',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ORCC809_16G00660' => array(
			'gene_id' => 'ORCC809_16G00660',
			'e_value' => '3e-17',
			'bit_score' => '86.3',
			'alignment_length' => '324',
			'identity_percentage' => '27.16',
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh664230' => array(
			'gene_id' => 'emh664230',
			'e_value' => '7e-15',
			'bit_score' => '79.3',
			'alignment_length' => '211',
			'identity_percentage' => '32.70',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh173790' => array(
			'gene_id' => 'emh173790',
			'e_value' => '1e-14',
			'bit_score' => '78.6',
			'alignment_length' => '211',
			'identity_percentage' => '32.70',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OL16G02020' => array(
			'gene_id' => 'OL16G02020',
			'e_value' => '3e-14',
			'bit_score' => '77.4',
			'alignment_length' => '326',
			'identity_percentage' => '25.77',
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0011G02170' => array(
			'gene_id' => 'AA0011G02170',
			'e_value' => '7e-13',
			'bit_score' => '70.5',
			'alignment_length' => '267',
			'identity_percentage' => '27.72',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_05G06940' => array(
			'gene_id' => 'MRCC299_05G06940',
			'e_value' => '4e-12',
			'bit_score' => '70.9',
			'alignment_length' => '328',
			'identity_percentage' => '27.13',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0002G05820' => array(
			'gene_id' => 'AA0002G05820',
			'e_value' => '2e-11',
			'bit_score' => '68.2',
			'alignment_length' => '280',
			'identity_percentage' => '28.57',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_20G01150' => array(
			'gene_id' => 'PTI_20G01150',
			'e_value' => '2e-10',
			'bit_score' => '65.9',
			'alignment_length' => '243',
			'identity_percentage' => '27.57',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh62480' => array(
			'gene_id' => 'emh62480',
			'e_value' => '2e-10',
			'bit_score' => '65.9',
			'alignment_length' => '213',
			'identity_percentage' => '29.11',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh466680' => array(
			'gene_id' => 'emh466680',
			'e_value' => '3e-10',
			'bit_score' => '65.5',
			'alignment_length' => '206',
			'identity_percentage' => '29.13',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh572420' => array(
			'gene_id' => 'emh572420',
			'e_value' => '7e-10',
			'bit_score' => '64.3',
			'alignment_length' => '213',
			'identity_percentage' => '28.64',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OT_17G01960' => array(
			'gene_id' => 'OT_17G01960',
			'e_value' => '1e-09',
			'bit_score' => '63.5',
			'alignment_length' => '326',
			'identity_percentage' => '23.31',
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0002G05810' => array(
			'gene_id' => 'AA0002G05810',
			'e_value' => '2e-09',
			'bit_score' => '62.8',
			'alignment_length' => '201',
			'identity_percentage' => '27.36',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh349180' => array(
			'gene_id' => 'emh349180',
			'e_value' => '5e-08',
			'bit_score' => '57.0',
			'alignment_length' => '192',
			'identity_percentage' => '29.17',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0263G00050' => array(
			'gene_id' => 'ES0263G00050',
			'e_value' => '1e-07',
			'bit_score' => '54.3',
			'alignment_length' => '122',
			'identity_percentage' => '31.97',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh734370' => array(
			'gene_id' => 'emh734370',
			'e_value' => '2e-06',
			'bit_score' => '52.4',
			'alignment_length' => '204',
			'identity_percentage' => '26.96',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		)
	),
	'similarity_hits_species' => array(
		'pse3' => array(
			(int) 0 => 'PI00G42800',
			(int) 1 => 'PI00G29440',
			(int) 2 => 'PI00G42810',
			(int) 3 => 'PI00G15880',
			(int) 4 => 'PI00G33460',
			(int) 5 => 'PI00G03960',
			(int) 6 => 'PI00G30540',
			(int) 7 => 'PI00G47900',
			(int) 8 => 'PI00G65760'
		),
		'prcc4223' => array(
			(int) 0 => 'RCC4223.07g03960',
			(int) 1 => 'RCC4223.03g08350',
			(int) 2 => 'RCC4223.07g03950',
			(int) 3 => 'RCC4223.02g06100',
			(int) 4 => 'RCC4223.01g01950',
			(int) 5 => 'RCC4223.03g07040',
			(int) 6 => 'RCC4223.01g05230'
		),
		'cnc64a' => array(
			(int) 0 => 'CNC64A_009G00520',
			(int) 1 => 'CNC64A_005G01530',
			(int) 2 => 'CNC64A_001G03160',
			(int) 3 => 'CNC64A_025G00190',
			(int) 4 => 'CNC64A_019G01080'
		),
		'tps' => array(
			(int) 0 => 'TP07G01900'
		),
		'ptri' => array(
			(int) 0 => 'PTI_12G00880',
			(int) 1 => 'PTI_20G01150'
		),
		'esi' => array(
			(int) 0 => 'ES0121G00040',
			(int) 1 => 'ES0121G00230',
			(int) 2 => 'ES0059G00510',
			(int) 3 => 'ES0263G00050'
		),
		'vca' => array(
			(int) 0 => 'VC00G18880',
			(int) 1 => 'VC00G18900'
		),
		'cvu' => array(
			(int) 0 => 'CV00G91850'
		),
		'hsp' => array(
			(int) 0 => 'HE0000G06670'
		),
		'aan' => array(
			(int) 0 => 'AA0012G00100',
			(int) 1 => 'AA0017G01560',
			(int) 2 => 'AA0007G00910',
			(int) 3 => 'AA0002G06930',
			(int) 4 => 'AA0011G02170',
			(int) 5 => 'AA0002G05820',
			(int) 6 => 'AA0002G05810'
		),
		'apr' => array(
			(int) 0 => 'AP00G23920'
		),
		'cre' => array(
			(int) 0 => 'CR03G07040',
			(int) 1 => 'CR02G10720',
			(int) 2 => 'CR03G06520'
		),
		'ddi' => array(
			(int) 0 => 'DDB_G0280263'
		),
		'nga' => array(
			(int) 0 => 'Naga_100043g13'
		),
		'ome' => array(
			(int) 0 => 'OM_17G02230'
		),
		'orcc809' => array(
			(int) 0 => 'ORCC809_16G00660'
		),
		'emh' => array(
			(int) 0 => 'emh664230',
			(int) 1 => 'emh173790',
			(int) 2 => 'emh62480',
			(int) 3 => 'emh466680',
			(int) 4 => 'emh572420',
			(int) 5 => 'emh349180',
			(int) 6 => 'emh734370'
		),
		'olu' => array(
			(int) 0 => 'OL16G02020'
		),
		'mrcc299' => array(
			(int) 0 => 'MRCC299_05G06940'
		),
		'ota' => array(
			(int) 0 => 'OT_17G01960'
		)
	),
	'gene_id' => 'PI00G42800',
	'all_species_index' => array(
		(int) 0 => array(
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'tax_id' => '13333'
		),
		(int) 1 => array(
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'tax_id' => '3702'
		),
		(int) 2 => array(
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'tax_id' => '763042'
		),
		(int) 3 => array(
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'tax_id' => '44056'
		),
		(int) 4 => array(
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'tax_id' => '3075'
		),
		(int) 5 => array(
			'species' => 'bprrcc1105',
			'common_name' => 'Bathycoccus prasinos',
			'tax_id' => '41875'
		),
		(int) 6 => array(
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'tax_id' => '6239'
		),
		(int) 7 => array(
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'tax_id' => '3055'
		),
		(int) 8 => array(
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'tax_id' => '310507'
		),
		(int) 9 => array(
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'tax_id' => '2769'
		),
		(int) 10 => array(
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'tax_id' => '574566'
		),
		(int) 11 => array(
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'tax_id' => '45157'
		),
		(int) 12 => array(
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'tax_id' => '44689'
		),
		(int) 13 => array(
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'tax_id' => '7227'
		),
		(int) 14 => array(
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'tax_id' => '2880'
		),
		(int) 15 => array(
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'tax_id' => '280463'
		),
		(int) 16 => array(
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'tax_id' => '186039'
		),
		(int) 17 => array(
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'tax_id' => '130081'
		),
		(int) 18 => array(
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'tax_id' => '145475'
		),
		(int) 19 => array(
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'tax_id' => '9606'
		),
		(int) 20 => array(
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'tax_id' => '564608'
		),
		(int) 21 => array(
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'tax_id' => '296587'
		),
		(int) 22 => array(
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'tax_id' => '10090'
		),
		(int) 23 => array(
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'tax_id' => '72520'
		),
		(int) 24 => array(
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'tax_id' => '4530'
		),
		(int) 25 => array(
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'tax_id' => '242159'
		),
		(int) 26 => array(
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'tax_id' => '1486918'
		),
		(int) 27 => array(
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'tax_id' => '385169'
		),
		(int) 28 => array(
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'tax_id' => '70448'
		),
		(int) 29 => array(
			'species' => 'pte',
			'common_name' => 'Paramecium tetraurelia',
			'tax_id' => '5888'
		),
		(int) 30 => array(
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'tax_id' => '2850'
		),
		(int) 31 => array(
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'tax_id' => '3218'
		),
		(int) 32 => array(
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'tax_id' => '67593'
		),
		(int) 33 => array(
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'tax_id' => '1470871'
		),
		(int) 34 => array(
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'tax_id' => '249344'
		),
		(int) 35 => array(
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'tax_id' => '4932'
		),
		(int) 36 => array(
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'tax_id' => '4896'
		),
		(int) 37 => array(
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'tax_id' => '35128'
		),
		(int) 38 => array(
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'tax_id' => '3067'
		)
	),
	'all_species' => array(
		'atr' => array(
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'tax_id' => '13333'
		),
		'ath' => array(
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'tax_id' => '3702'
		),
		'acg' => array(
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'tax_id' => '763042'
		),
		'aan' => array(
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'tax_id' => '44056'
		),
		'apr' => array(
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'tax_id' => '3075'
		),
		'bprrcc1105' => array(
			'species' => 'bprrcc1105',
			'common_name' => 'Bathycoccus prasinos',
			'tax_id' => '41875'
		),
		'cel' => array(
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'tax_id' => '6239'
		),
		'cre' => array(
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'tax_id' => '3055'
		),
		'cnc64a' => array(
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'tax_id' => '310507'
		),
		'ccr' => array(
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'tax_id' => '2769'
		),
		'cvu' => array(
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'tax_id' => '574566'
		),
		'cme' => array(
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'tax_id' => '45157'
		),
		'ddi' => array(
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'tax_id' => '44689'
		),
		'drm' => array(
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'tax_id' => '7227'
		),
		'esi' => array(
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'tax_id' => '2880'
		),
		'emh' => array(
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'tax_id' => '280463'
		),
		'fcy' => array(
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'tax_id' => '186039'
		),
		'gsu' => array(
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'tax_id' => '130081'
		),
		'hsp' => array(
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'tax_id' => '145475'
		),
		'hom' => array(
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'tax_id' => '9606'
		),
		'mpu' => array(
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'tax_id' => '564608'
		),
		'mrcc299' => array(
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'tax_id' => '296587'
		),
		'mus' => array(
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'tax_id' => '10090'
		),
		'nga' => array(
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'tax_id' => '72520'
		),
		'osa' => array(
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'tax_id' => '4530'
		),
		'olu' => array(
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'tax_id' => '242159'
		),
		'ome' => array(
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'tax_id' => '1486918'
		),
		'orcc809' => array(
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'tax_id' => '385169'
		),
		'ota' => array(
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'tax_id' => '70448'
		),
		'pte' => array(
			'species' => 'pte',
			'common_name' => 'Paramecium tetraurelia',
			'tax_id' => '5888'
		),
		'ptri' => array(
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'tax_id' => '2850'
		),
		'ppa' => array(
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'tax_id' => '3218'
		),
		'phs' => array(
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'tax_id' => '67593'
		),
		'pse3' => array(
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'tax_id' => '1470871'
		),
		'prcc4223' => array(
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'tax_id' => '249344'
		),
		'sac' => array(
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'tax_id' => '4932'
		),
		'scp' => array(
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'tax_id' => '4896'
		),
		'tps' => array(
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'tax_id' => '35128'
		),
		'vca' => array(
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'tax_id' => '3067'
		)
	),
	'gene_family_types_information' => array(
		'HOMFAM' => array(
			'id' => 'HOMFAM',
			'name' => 'Homologous gene family',
			'prefix' => 'HOM',
			'gene_type' => 'coding',
			'method' => '{}',
			'ancestry' => 'homology',
			'parent_id' => ''
		),
		'ORTHOFAM' => array(
			'id' => 'ORTHOFAM',
			'name' => 'Orthologous gene family',
			'prefix' => 'ORTH',
			'gene_type' => 'coding',
			'method' => '{}',
			'ancestry' => 'orthology',
			'parent_id' => 'HOMFAM'
		)
	),
	'gene_family_types_configuration' => array(),
	'data_identifier' => 'PI00G42800',
	'data_type' => 'gene_id',
	'allow_async_use' => true,
	'gene_placeholder' => 'OT_11G01240',
	'gf_placeholder' => 'HOM03P003327',
	'title_for_layout' => 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
)
$allowed_extra_sequences_types = array(
	'aa' => 'Protein',
	'dna' => 'DNA'
)
$allowed_editing_methods = array(
	'column' => 'Positions only',
	'row' => 'Genes only',
	'column_row' => 'Positions and Genes',
	'none' => 'No editing'
)
$allowed_tree_programs = array(
	'fasttree' => 'FastTree',
	'iqtree' => 'IQ-TREE (includes model testing)',
	'raxml' => 'RAxML',
	'phyml' => 'PhyML'
)
$allowed_msa_programs = array(
	'muscle' => 'MUSCLE',
	'mafft' => 'MAFFT'
)
$allowed_number_blasthits = array(
	(int) 0 => 'all',
	(int) 1 => (int) 20,
	(int) 2 => (int) 10,
	(int) 3 => (int) 5,
	(int) 4 => (int) 1
)
$similarity_hits_genes = array(
	'PI00G42800' => array(
		'gene_id' => 'PI00G42800',
		'e_value' => '0.0',
		'bit_score' => '709',
		'alignment_length' => '342',
		'identity_percentage' => '100.00',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P063421'
		)
	),
	'RCC4223.07g03960' => array(
		'gene_id' => 'RCC4223.07g03960',
		'e_value' => '0.0',
		'bit_score' => '666',
		'alignment_length' => '342',
		'identity_percentage' => '92.69',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P063421'
		)
	),
	'RCC4223.03g08350' => array(
		'gene_id' => 'RCC4223.03g08350',
		'e_value' => '3e-74',
		'bit_score' => '238',
		'alignment_length' => '342',
		'identity_percentage' => '39.18',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P033528'
		)
	),
	'PI00G29440' => array(
		'gene_id' => 'PI00G29440',
		'e_value' => '2e-70',
		'bit_score' => '229',
		'alignment_length' => '342',
		'identity_percentage' => '37.43',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P033528'
		)
	),
	'RCC4223.07g03950' => array(
		'gene_id' => 'RCC4223.07g03950',
		'e_value' => '4e-59',
		'bit_score' => '201',
		'alignment_length' => '361',
		'identity_percentage' => '37.40',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P062810'
		)
	),
	'PI00G42810' => array(
		'gene_id' => 'PI00G42810',
		'e_value' => '4e-55',
		'bit_score' => '190',
		'alignment_length' => '328',
		'identity_percentage' => '38.41',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P062810'
		)
	),
	'PI00G15880' => array(
		'gene_id' => 'PI00G15880',
		'e_value' => '3e-53',
		'bit_score' => '191',
		'alignment_length' => '315',
		'identity_percentage' => '36.19',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069125'
		)
	),
	'RCC4223.02g06100' => array(
		'gene_id' => 'RCC4223.02g06100',
		'e_value' => '2e-52',
		'bit_score' => '188',
		'alignment_length' => '315',
		'identity_percentage' => '35.87',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069125'
		)
	),
	'RCC4223.01g01950' => array(
		'gene_id' => 'RCC4223.01g01950',
		'e_value' => '9e-52',
		'bit_score' => '186',
		'alignment_length' => '324',
		'identity_percentage' => '35.49',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P073173'
		)
	),
	'PI00G33460' => array(
		'gene_id' => 'PI00G33460',
		'e_value' => '6e-51',
		'bit_score' => '185',
		'alignment_length' => '320',
		'identity_percentage' => '36.25',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P073173'
		)
	),
	'PI00G03960' => array(
		'gene_id' => 'PI00G03960',
		'e_value' => '1e-49',
		'bit_score' => '176',
		'alignment_length' => '324',
		'identity_percentage' => '36.73',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P096624'
		)
	),
	'RCC4223.03g07040' => array(
		'gene_id' => 'RCC4223.03g07040',
		'e_value' => '3e-49',
		'bit_score' => '174',
		'alignment_length' => '325',
		'identity_percentage' => '32.31',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069753'
		)
	),
	'CNC64A_009G00520' => array(
		'gene_id' => 'CNC64A_009G00520',
		'e_value' => '2e-47',
		'bit_score' => '168',
		'alignment_length' => '239',
		'identity_percentage' => '37.24',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P071593'
		)
	),
	'PI00G30540' => array(
		'gene_id' => 'PI00G30540',
		'e_value' => '3e-46',
		'bit_score' => '166',
		'alignment_length' => '323',
		'identity_percentage' => '31.58',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069753'
		)
	),
	'TP07G01900' => array(
		'gene_id' => 'TP07G01900',
		'e_value' => '2e-39',
		'bit_score' => '145',
		'alignment_length' => '309',
		'identity_percentage' => '33.66',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'PTI_12G00880' => array(
		'gene_id' => 'PTI_12G00880',
		'e_value' => '2e-35',
		'bit_score' => '142',
		'alignment_length' => '308',
		'identity_percentage' => '32.79',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'PI00G47900' => array(
		'gene_id' => 'PI00G47900',
		'e_value' => '7e-35',
		'bit_score' => '137',
		'alignment_length' => '319',
		'identity_percentage' => '32.29',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'PI00G65760' => array(
		'gene_id' => 'PI00G65760',
		'e_value' => '1e-34',
		'bit_score' => '135',
		'alignment_length' => '321',
		'identity_percentage' => '31.15',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P130752'
		)
	),
	'RCC4223.01g05230' => array(
		'gene_id' => 'RCC4223.01g05230',
		'e_value' => '1e-34',
		'bit_score' => '136',
		'alignment_length' => '319',
		'identity_percentage' => '31.66',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'ES0121G00040' => array(
		'gene_id' => 'ES0121G00040',
		'e_value' => '5e-34',
		'bit_score' => '134',
		'alignment_length' => '304',
		'identity_percentage' => '31.25',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'VC00G18880' => array(
		'gene_id' => 'VC00G18880',
		'e_value' => '7e-34',
		'bit_score' => '131',
		'alignment_length' => '321',
		'identity_percentage' => '31.46',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'VC00G18900' => array(
		'gene_id' => 'VC00G18900',
		'e_value' => '7e-34',
		'bit_score' => '132',
		'alignment_length' => '321',
		'identity_percentage' => '31.78',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'ES0121G00230' => array(
		'gene_id' => 'ES0121G00230',
		'e_value' => '1e-32',
		'bit_score' => '129',
		'alignment_length' => '320',
		'identity_percentage' => '29.69',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'CV00G91850' => array(
		'gene_id' => 'CV00G91850',
		'e_value' => '9e-32',
		'bit_score' => '125',
		'alignment_length' => '315',
		'identity_percentage' => '32.70',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'HE0000G06670' => array(
		'gene_id' => 'HE0000G06670',
		'e_value' => '5e-31',
		'bit_score' => '122',
		'alignment_length' => '290',
		'identity_percentage' => '31.72',
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'ES0059G00510' => array(
		'gene_id' => 'ES0059G00510',
		'e_value' => '2e-29',
		'bit_score' => '124',
		'alignment_length' => '193',
		'identity_percentage' => '39.38',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P071593'
		)
	),
	'CNC64A_005G01530' => array(
		'gene_id' => 'CNC64A_005G01530',
		'e_value' => '1e-28',
		'bit_score' => '119',
		'alignment_length' => '316',
		'identity_percentage' => '31.96',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0012G00100' => array(
		'gene_id' => 'AA0012G00100',
		'e_value' => '6e-27',
		'bit_score' => '111',
		'alignment_length' => '314',
		'identity_percentage' => '29.62',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'CNC64A_001G03160' => array(
		'gene_id' => 'CNC64A_001G03160',
		'e_value' => '1e-26',
		'bit_score' => '112',
		'alignment_length' => '317',
		'identity_percentage' => '30.60',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'AP00G23920' => array(
		'gene_id' => 'AP00G23920',
		'e_value' => '4e-26',
		'bit_score' => '110',
		'alignment_length' => '315',
		'identity_percentage' => '27.62',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'CNC64A_081G00020' => array(
		'gene_id' => 'CNC64A_081G00020',
		'e_value' => '6e-23',
		'bit_score' => '99.4',
		'alignment_length' => '215',
		'identity_percentage' => '33.95',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P047980'
		)
	),
	'CNC64A_025G00190' => array(
		'gene_id' => 'CNC64A_025G00190',
		'e_value' => '2e-22',
		'bit_score' => '99.4',
		'alignment_length' => '215',
		'identity_percentage' => '33.95',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P047980'
		)
	),
	'CR03G07040' => array(
		'gene_id' => 'CR03G07040',
		'e_value' => '2e-22',
		'bit_score' => '102',
		'alignment_length' => '315',
		'identity_percentage' => '27.30',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'CR02G10720' => array(
		'gene_id' => 'CR02G10720',
		'e_value' => '9e-22',
		'bit_score' => '97.8',
		'alignment_length' => '324',
		'identity_percentage' => '27.78',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'AA0017G01560' => array(
		'gene_id' => 'AA0017G01560',
		'e_value' => '7e-21',
		'bit_score' => '94.0',
		'alignment_length' => '314',
		'identity_percentage' => '31.21',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'DDB_G0280263' => array(
		'gene_id' => 'DDB_G0280263',
		'e_value' => '8e-21',
		'bit_score' => '94.4',
		'alignment_length' => '307',
		'identity_percentage' => '27.69',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'AA0007G00910' => array(
		'gene_id' => 'AA0007G00910',
		'e_value' => '2e-20',
		'bit_score' => '92.8',
		'alignment_length' => '319',
		'identity_percentage' => '29.47',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'CR03G06520' => array(
		'gene_id' => 'CR03G06520',
		'e_value' => '5e-20',
		'bit_score' => '93.2',
		'alignment_length' => '338',
		'identity_percentage' => '28.70',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P033528'
		)
	),
	'AA0002G06930' => array(
		'gene_id' => 'AA0002G06930',
		'e_value' => '2e-19',
		'bit_score' => '90.9',
		'alignment_length' => '285',
		'identity_percentage' => '28.07',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'CNC64A_019G01080' => array(
		'gene_id' => 'CNC64A_019G01080',
		'e_value' => '6e-19',
		'bit_score' => '91.7',
		'alignment_length' => '202',
		'identity_percentage' => '32.67',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'Naga_100043g13' => array(
		'gene_id' => 'Naga_100043g13',
		'e_value' => '1e-18',
		'bit_score' => '90.5',
		'alignment_length' => '315',
		'identity_percentage' => '27.94',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'OM_17G02230' => array(
		'gene_id' => 'OM_17G02230',
		'e_value' => '1e-17',
		'bit_score' => '87.8',
		'alignment_length' => '345',
		'identity_percentage' => '25.51',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'ORCC809_16G00660' => array(
		'gene_id' => 'ORCC809_16G00660',
		'e_value' => '3e-17',
		'bit_score' => '86.3',
		'alignment_length' => '324',
		'identity_percentage' => '27.16',
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'emh664230' => array(
		'gene_id' => 'emh664230',
		'e_value' => '7e-15',
		'bit_score' => '79.3',
		'alignment_length' => '211',
		'identity_percentage' => '32.70',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P049315'
		)
	),
	'emh173790' => array(
		'gene_id' => 'emh173790',
		'e_value' => '1e-14',
		'bit_score' => '78.6',
		'alignment_length' => '211',
		'identity_percentage' => '32.70',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P049315'
		)
	),
	'OL16G02020' => array(
		'gene_id' => 'OL16G02020',
		'e_value' => '3e-14',
		'bit_score' => '77.4',
		'alignment_length' => '326',
		'identity_percentage' => '25.77',
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0011G02170' => array(
		'gene_id' => 'AA0011G02170',
		'e_value' => '7e-13',
		'bit_score' => '70.5',
		'alignment_length' => '267',
		'identity_percentage' => '27.72',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'MRCC299_05G06940' => array(
		'gene_id' => 'MRCC299_05G06940',
		'e_value' => '4e-12',
		'bit_score' => '70.9',
		'alignment_length' => '328',
		'identity_percentage' => '27.13',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0002G05820' => array(
		'gene_id' => 'AA0002G05820',
		'e_value' => '2e-11',
		'bit_score' => '68.2',
		'alignment_length' => '280',
		'identity_percentage' => '28.57',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'PTI_20G01150' => array(
		'gene_id' => 'PTI_20G01150',
		'e_value' => '2e-10',
		'bit_score' => '65.9',
		'alignment_length' => '243',
		'identity_percentage' => '27.57',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P143054'
		)
	),
	'emh62480' => array(
		'gene_id' => 'emh62480',
		'e_value' => '2e-10',
		'bit_score' => '65.9',
		'alignment_length' => '213',
		'identity_percentage' => '29.11',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'emh466680' => array(
		'gene_id' => 'emh466680',
		'e_value' => '3e-10',
		'bit_score' => '65.5',
		'alignment_length' => '206',
		'identity_percentage' => '29.13',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'emh572420' => array(
		'gene_id' => 'emh572420',
		'e_value' => '7e-10',
		'bit_score' => '64.3',
		'alignment_length' => '213',
		'identity_percentage' => '28.64',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'OT_17G01960' => array(
		'gene_id' => 'OT_17G01960',
		'e_value' => '1e-09',
		'bit_score' => '63.5',
		'alignment_length' => '326',
		'identity_percentage' => '23.31',
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0002G05810' => array(
		'gene_id' => 'AA0002G05810',
		'e_value' => '2e-09',
		'bit_score' => '62.8',
		'alignment_length' => '201',
		'identity_percentage' => '27.36',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'emh349180' => array(
		'gene_id' => 'emh349180',
		'e_value' => '5e-08',
		'bit_score' => '57.0',
		'alignment_length' => '192',
		'identity_percentage' => '29.17',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P113167'
		)
	),
	'ES0263G00050' => array(
		'gene_id' => 'ES0263G00050',
		'e_value' => '1e-07',
		'bit_score' => '54.3',
		'alignment_length' => '122',
		'identity_percentage' => '31.97',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'emh734370' => array(
		'gene_id' => 'emh734370',
		'e_value' => '2e-06',
		'bit_score' => '52.4',
		'alignment_length' => '204',
		'identity_percentage' => '26.96',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	)
)
$similarity_hits_species = array(
	'pse3' => array(
		(int) 0 => 'PI00G42800',
		(int) 1 => 'PI00G29440',
		(int) 2 => 'PI00G42810',
		(int) 3 => 'PI00G15880',
		(int) 4 => 'PI00G33460',
		(int) 5 => 'PI00G03960',
		(int) 6 => 'PI00G30540',
		(int) 7 => 'PI00G47900',
		(int) 8 => 'PI00G65760'
	),
	'prcc4223' => array(
		(int) 0 => 'RCC4223.07g03960',
		(int) 1 => 'RCC4223.03g08350',
		(int) 2 => 'RCC4223.07g03950',
		(int) 3 => 'RCC4223.02g06100',
		(int) 4 => 'RCC4223.01g01950',
		(int) 5 => 'RCC4223.03g07040',
		(int) 6 => 'RCC4223.01g05230'
	),
	'cnc64a' => array(
		(int) 0 => 'CNC64A_009G00520',
		(int) 1 => 'CNC64A_005G01530',
		(int) 2 => 'CNC64A_001G03160',
		(int) 3 => 'CNC64A_025G00190',
		(int) 4 => 'CNC64A_019G01080'
	),
	'tps' => array(
		(int) 0 => 'TP07G01900'
	),
	'ptri' => array(
		(int) 0 => 'PTI_12G00880',
		(int) 1 => 'PTI_20G01150'
	),
	'esi' => array(
		(int) 0 => 'ES0121G00040',
		(int) 1 => 'ES0121G00230',
		(int) 2 => 'ES0059G00510',
		(int) 3 => 'ES0263G00050'
	),
	'vca' => array(
		(int) 0 => 'VC00G18880',
		(int) 1 => 'VC00G18900'
	),
	'cvu' => array(
		(int) 0 => 'CV00G91850'
	),
	'hsp' => array(
		(int) 0 => 'HE0000G06670'
	),
	'aan' => array(
		(int) 0 => 'AA0012G00100',
		(int) 1 => 'AA0017G01560',
		(int) 2 => 'AA0007G00910',
		(int) 3 => 'AA0002G06930',
		(int) 4 => 'AA0011G02170',
		(int) 5 => 'AA0002G05820',
		(int) 6 => 'AA0002G05810'
	),
	'apr' => array(
		(int) 0 => 'AP00G23920'
	),
	'cre' => array(
		(int) 0 => 'CR03G07040',
		(int) 1 => 'CR02G10720',
		(int) 2 => 'CR03G06520'
	),
	'ddi' => array(
		(int) 0 => 'DDB_G0280263'
	),
	'nga' => array(
		(int) 0 => 'Naga_100043g13'
	),
	'ome' => array(
		(int) 0 => 'OM_17G02230'
	),
	'orcc809' => array(
		(int) 0 => 'ORCC809_16G00660'
	),
	'emh' => array(
		(int) 0 => 'emh664230',
		(int) 1 => 'emh173790',
		(int) 2 => 'emh62480',
		(int) 3 => 'emh466680',
		(int) 4 => 'emh572420',
		(int) 5 => 'emh349180',
		(int) 6 => 'emh734370'
	),
	'olu' => array(
		(int) 0 => 'OL16G02020'
	),
	'mrcc299' => array(
		(int) 0 => 'MRCC299_05G06940'
	),
	'ota' => array(
		(int) 0 => 'OT_17G01960'
	)
)
$gene_id = 'PI00G42800'
$all_species_index = array(
	(int) 0 => array(
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'tax_id' => '13333'
	),
	(int) 1 => array(
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'tax_id' => '3702'
	),
	(int) 2 => array(
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'tax_id' => '763042'
	),
	(int) 3 => array(
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'tax_id' => '44056'
	),
	(int) 4 => array(
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'tax_id' => '3075'
	),
	(int) 5 => array(
		'species' => 'bprrcc1105',
		'common_name' => 'Bathycoccus prasinos',
		'tax_id' => '41875'
	),
	(int) 6 => array(
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'tax_id' => '6239'
	),
	(int) 7 => array(
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'tax_id' => '3055'
	),
	(int) 8 => array(
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'tax_id' => '310507'
	),
	(int) 9 => array(
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'tax_id' => '2769'
	),
	(int) 10 => array(
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'tax_id' => '574566'
	),
	(int) 11 => array(
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'tax_id' => '45157'
	),
	(int) 12 => array(
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'tax_id' => '44689'
	),
	(int) 13 => array(
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'tax_id' => '7227'
	),
	(int) 14 => array(
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'tax_id' => '2880'
	),
	(int) 15 => array(
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'tax_id' => '280463'
	),
	(int) 16 => array(
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'tax_id' => '186039'
	),
	(int) 17 => array(
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'tax_id' => '130081'
	),
	(int) 18 => array(
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'tax_id' => '145475'
	),
	(int) 19 => array(
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'tax_id' => '9606'
	),
	(int) 20 => array(
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'tax_id' => '564608'
	),
	(int) 21 => array(
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'tax_id' => '296587'
	),
	(int) 22 => array(
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'tax_id' => '10090'
	),
	(int) 23 => array(
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'tax_id' => '72520'
	),
	(int) 24 => array(
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'tax_id' => '4530'
	),
	(int) 25 => array(
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'tax_id' => '242159'
	),
	(int) 26 => array(
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'tax_id' => '1486918'
	),
	(int) 27 => array(
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'tax_id' => '385169'
	),
	(int) 28 => array(
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'tax_id' => '70448'
	),
	(int) 29 => array(
		'species' => 'pte',
		'common_name' => 'Paramecium tetraurelia',
		'tax_id' => '5888'
	),
	(int) 30 => array(
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'tax_id' => '2850'
	),
	(int) 31 => array(
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'tax_id' => '3218'
	),
	(int) 32 => array(
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'tax_id' => '67593'
	),
	(int) 33 => array(
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'tax_id' => '1470871'
	),
	(int) 34 => array(
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'tax_id' => '249344'
	),
	(int) 35 => array(
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'tax_id' => '4932'
	),
	(int) 36 => array(
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'tax_id' => '4896'
	),
	(int) 37 => array(
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'tax_id' => '35128'
	),
	(int) 38 => array(
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'tax_id' => '3067'
	)
)
$all_species = array(
	'atr' => array(
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'tax_id' => '13333'
	),
	'ath' => array(
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'tax_id' => '3702'
	),
	'acg' => array(
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'tax_id' => '763042'
	),
	'aan' => array(
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'tax_id' => '44056'
	),
	'apr' => array(
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'tax_id' => '3075'
	),
	'bprrcc1105' => array(
		'species' => 'bprrcc1105',
		'common_name' => 'Bathycoccus prasinos',
		'tax_id' => '41875'
	),
	'cel' => array(
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'tax_id' => '6239'
	),
	'cre' => array(
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'tax_id' => '3055'
	),
	'cnc64a' => array(
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'tax_id' => '310507'
	),
	'ccr' => array(
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'tax_id' => '2769'
	),
	'cvu' => array(
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'tax_id' => '574566'
	),
	'cme' => array(
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'tax_id' => '45157'
	),
	'ddi' => array(
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'tax_id' => '44689'
	),
	'drm' => array(
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'tax_id' => '7227'
	),
	'esi' => array(
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'tax_id' => '2880'
	),
	'emh' => array(
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'tax_id' => '280463'
	),
	'fcy' => array(
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'tax_id' => '186039'
	),
	'gsu' => array(
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'tax_id' => '130081'
	),
	'hsp' => array(
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'tax_id' => '145475'
	),
	'hom' => array(
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'tax_id' => '9606'
	),
	'mpu' => array(
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'tax_id' => '564608'
	),
	'mrcc299' => array(
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'tax_id' => '296587'
	),
	'mus' => array(
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'tax_id' => '10090'
	),
	'nga' => array(
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'tax_id' => '72520'
	),
	'osa' => array(
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'tax_id' => '4530'
	),
	'olu' => array(
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'tax_id' => '242159'
	),
	'ome' => array(
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'tax_id' => '1486918'
	),
	'orcc809' => array(
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'tax_id' => '385169'
	),
	'ota' => array(
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'tax_id' => '70448'
	),
	'pte' => array(
		'species' => 'pte',
		'common_name' => 'Paramecium tetraurelia',
		'tax_id' => '5888'
	),
	'ptri' => array(
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'tax_id' => '2850'
	),
	'ppa' => array(
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'tax_id' => '3218'
	),
	'phs' => array(
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'tax_id' => '67593'
	),
	'pse3' => array(
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'tax_id' => '1470871'
	),
	'prcc4223' => array(
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'tax_id' => '249344'
	),
	'sac' => array(
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'tax_id' => '4932'
	),
	'scp' => array(
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'tax_id' => '4896'
	),
	'tps' => array(
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'tax_id' => '35128'
	),
	'vca' => array(
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'tax_id' => '3067'
	)
)
$gene_family_types_information = array(
	'HOMFAM' => array(
		'id' => 'HOMFAM',
		'name' => 'Homologous gene family',
		'prefix' => 'HOM',
		'gene_type' => 'coding',
		'method' => '{}',
		'ancestry' => 'homology',
		'parent_id' => ''
	),
	'ORTHOFAM' => array(
		'id' => 'ORTHOFAM',
		'name' => 'Orthologous gene family',
		'prefix' => 'ORTH',
		'gene_type' => 'coding',
		'method' => '{}',
		'ancestry' => 'orthology',
		'parent_id' => 'HOMFAM'
	)
)
$gene_family_types_configuration = array()
$data_identifier = 'PI00G42800'
$data_type = 'gene_id'
$allow_async_use = true
$gene_placeholder = 'OT_11G01240'
$gf_placeholder = 'HOM03P003327'
$title_for_layout = 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
$collapse1 = ''
$collapse2 = 'collapse in'
$similarity_hit = array(
	'gene_id' => 'CNC64A_081G00020',
	'e_value' => '6e-23',
	'bit_score' => '99.4',
	'alignment_length' => '215',
	'identity_percentage' => '33.95',
	'gf' => array(
		'HOMFAM' => 'HOM03P001374',
		'ORTHOFAM' => 'ORTHO03P047980'
	)
)
$checked = null
$similarity_hit_gene = 'CNC64A_081G00020'
include - APP/View/Analysis/custom_tree_creation.ctp, line 169
View::_evaluate() - CORE/Cake/View/View.php, line 971
View::_render() - CORE/Cake/View/View.php, line 933
View::render() - CORE/Cake/View/View.php, line 473
Controller::render() - CORE/Cake/Controller/Controller.php, line 963
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167
[main] - APP/webroot/index.php, line 146

Notice (8): Undefined index: common_name [APP/View/Analysis/custom_tree_creation.ctp, line 169]Code Context                                                    echo "<td><input type='checkbox' name='selected_genes[]' value='".$similarity_hit['gene_id']."' ".$checked." /></td>\n";
                                                    echo "<td>".$this->Html->link($similarity_hit_gene,array("controller"=>"genes","action"=>"view",$similarity_hit_gene),array("target"=>"_blank"))."</td>\n";
                                                    echo "<td>".$this->Html->link($similarity_hit['common_name'],array("controller"=>"organism","action"=>"view",urlencode($similarity_hit['common_name'])))."</td>\n";
$viewFile = '/xtras/group/biocomp/plaza/versions/plaza_pico_03/app/View/Analysis/custom_tree_creation.ctp'
$dataForView = array(
	'allowed_extra_sequences_types' => array(
		'aa' => 'Protein',
		'dna' => 'DNA'
	),
	'allowed_editing_methods' => array(
		'column' => 'Positions only',
		'row' => 'Genes only',
		'column_row' => 'Positions and Genes',
		'none' => 'No editing'
	),
	'allowed_tree_programs' => array(
		'fasttree' => 'FastTree',
		'iqtree' => 'IQ-TREE (includes model testing)',
		'raxml' => 'RAxML',
		'phyml' => 'PhyML'
	),
	'allowed_msa_programs' => array(
		'muscle' => 'MUSCLE',
		'mafft' => 'MAFFT'
	),
	'allowed_number_blasthits' => array(
		(int) 0 => 'all',
		(int) 1 => (int) 20,
		(int) 2 => (int) 10,
		(int) 3 => (int) 5,
		(int) 4 => (int) 1
	),
	'similarity_hits_genes' => array(
		'PI00G42800' => array(
			'gene_id' => 'PI00G42800',
			'e_value' => '0.0',
			'bit_score' => '709',
			'alignment_length' => '342',
			'identity_percentage' => '100.00',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.07g03960' => array(
			'gene_id' => 'RCC4223.07g03960',
			'e_value' => '0.0',
			'bit_score' => '666',
			'alignment_length' => '342',
			'identity_percentage' => '92.69',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.03g08350' => array(
			'gene_id' => 'RCC4223.03g08350',
			'e_value' => '3e-74',
			'bit_score' => '238',
			'alignment_length' => '342',
			'identity_percentage' => '39.18',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G29440' => array(
			'gene_id' => 'PI00G29440',
			'e_value' => '2e-70',
			'bit_score' => '229',
			'alignment_length' => '342',
			'identity_percentage' => '37.43',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.07g03950' => array(
			'gene_id' => 'RCC4223.07g03950',
			'e_value' => '4e-59',
			'bit_score' => '201',
			'alignment_length' => '361',
			'identity_percentage' => '37.40',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G42810' => array(
			'gene_id' => 'PI00G42810',
			'e_value' => '4e-55',
			'bit_score' => '190',
			'alignment_length' => '328',
			'identity_percentage' => '38.41',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G15880' => array(
			'gene_id' => 'PI00G15880',
			'e_value' => '3e-53',
			'bit_score' => '191',
			'alignment_length' => '315',
			'identity_percentage' => '36.19',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.02g06100' => array(
			'gene_id' => 'RCC4223.02g06100',
			'e_value' => '2e-52',
			'bit_score' => '188',
			'alignment_length' => '315',
			'identity_percentage' => '35.87',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.01g01950' => array(
			'gene_id' => 'RCC4223.01g01950',
			'e_value' => '9e-52',
			'bit_score' => '186',
			'alignment_length' => '324',
			'identity_percentage' => '35.49',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G33460' => array(
			'gene_id' => 'PI00G33460',
			'e_value' => '6e-51',
			'bit_score' => '185',
			'alignment_length' => '320',
			'identity_percentage' => '36.25',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G03960' => array(
			'gene_id' => 'PI00G03960',
			'e_value' => '1e-49',
			'bit_score' => '176',
			'alignment_length' => '324',
			'identity_percentage' => '36.73',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.03g07040' => array(
			'gene_id' => 'RCC4223.03g07040',
			'e_value' => '3e-49',
			'bit_score' => '174',
			'alignment_length' => '325',
			'identity_percentage' => '32.31',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_009G00520' => array(
			'gene_id' => 'CNC64A_009G00520',
			'e_value' => '2e-47',
			'bit_score' => '168',
			'alignment_length' => '239',
			'identity_percentage' => '37.24',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G30540' => array(
			'gene_id' => 'PI00G30540',
			'e_value' => '3e-46',
			'bit_score' => '166',
			'alignment_length' => '323',
			'identity_percentage' => '31.58',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP07G01900' => array(
			'gene_id' => 'TP07G01900',
			'e_value' => '2e-39',
			'bit_score' => '145',
			'alignment_length' => '309',
			'identity_percentage' => '33.66',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_12G00880' => array(
			'gene_id' => 'PTI_12G00880',
			'e_value' => '2e-35',
			'bit_score' => '142',
			'alignment_length' => '308',
			'identity_percentage' => '32.79',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G47900' => array(
			'gene_id' => 'PI00G47900',
			'e_value' => '7e-35',
			'bit_score' => '137',
			'alignment_length' => '319',
			'identity_percentage' => '32.29',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G65760' => array(
			'gene_id' => 'PI00G65760',
			'e_value' => '1e-34',
			'bit_score' => '135',
			'alignment_length' => '321',
			'identity_percentage' => '31.15',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.01g05230' => array(
			'gene_id' => 'RCC4223.01g05230',
			'e_value' => '1e-34',
			'bit_score' => '136',
			'alignment_length' => '319',
			'identity_percentage' => '31.66',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0121G00040' => array(
			'gene_id' => 'ES0121G00040',
			'e_value' => '5e-34',
			'bit_score' => '134',
			'alignment_length' => '304',
			'identity_percentage' => '31.25',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G18880' => array(
			'gene_id' => 'VC00G18880',
			'e_value' => '7e-34',
			'bit_score' => '131',
			'alignment_length' => '321',
			'identity_percentage' => '31.46',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G18900' => array(
			'gene_id' => 'VC00G18900',
			'e_value' => '7e-34',
			'bit_score' => '132',
			'alignment_length' => '321',
			'identity_percentage' => '31.78',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0121G00230' => array(
			'gene_id' => 'ES0121G00230',
			'e_value' => '1e-32',
			'bit_score' => '129',
			'alignment_length' => '320',
			'identity_percentage' => '29.69',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G91850' => array(
			'gene_id' => 'CV00G91850',
			'e_value' => '9e-32',
			'bit_score' => '125',
			'alignment_length' => '315',
			'identity_percentage' => '32.70',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'HE0000G06670' => array(
			'gene_id' => 'HE0000G06670',
			'e_value' => '5e-31',
			'bit_score' => '122',
			'alignment_length' => '290',
			'identity_percentage' => '31.72',
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0059G00510' => array(
			'gene_id' => 'ES0059G00510',
			'e_value' => '2e-29',
			'bit_score' => '124',
			'alignment_length' => '193',
			'identity_percentage' => '39.38',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_005G01530' => array(
			'gene_id' => 'CNC64A_005G01530',
			'e_value' => '1e-28',
			'bit_score' => '119',
			'alignment_length' => '316',
			'identity_percentage' => '31.96',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0012G00100' => array(
			'gene_id' => 'AA0012G00100',
			'e_value' => '6e-27',
			'bit_score' => '111',
			'alignment_length' => '314',
			'identity_percentage' => '29.62',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_001G03160' => array(
			'gene_id' => 'CNC64A_001G03160',
			'e_value' => '1e-26',
			'bit_score' => '112',
			'alignment_length' => '317',
			'identity_percentage' => '30.60',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G23920' => array(
			'gene_id' => 'AP00G23920',
			'e_value' => '4e-26',
			'bit_score' => '110',
			'alignment_length' => '315',
			'identity_percentage' => '27.62',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_081G00020' => array(
			'gene_id' => 'CNC64A_081G00020',
			'e_value' => '6e-23',
			'bit_score' => '99.4',
			'alignment_length' => '215',
			'identity_percentage' => '33.95',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_025G00190' => array(
			'gene_id' => 'CNC64A_025G00190',
			'e_value' => '2e-22',
			'bit_score' => '99.4',
			'alignment_length' => '215',
			'identity_percentage' => '33.95',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR03G07040' => array(
			'gene_id' => 'CR03G07040',
			'e_value' => '2e-22',
			'bit_score' => '102',
			'alignment_length' => '315',
			'identity_percentage' => '27.30',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR02G10720' => array(
			'gene_id' => 'CR02G10720',
			'e_value' => '9e-22',
			'bit_score' => '97.8',
			'alignment_length' => '324',
			'identity_percentage' => '27.78',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0017G01560' => array(
			'gene_id' => 'AA0017G01560',
			'e_value' => '7e-21',
			'bit_score' => '94.0',
			'alignment_length' => '314',
			'identity_percentage' => '31.21',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0280263' => array(
			'gene_id' => 'DDB_G0280263',
			'e_value' => '8e-21',
			'bit_score' => '94.4',
			'alignment_length' => '307',
			'identity_percentage' => '27.69',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0007G00910' => array(
			'gene_id' => 'AA0007G00910',
			'e_value' => '2e-20',
			'bit_score' => '92.8',
			'alignment_length' => '319',
			'identity_percentage' => '29.47',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR03G06520' => array(
			'gene_id' => 'CR03G06520',
			'e_value' => '5e-20',
			'bit_score' => '93.2',
			'alignment_length' => '338',
			'identity_percentage' => '28.70',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0002G06930' => array(
			'gene_id' => 'AA0002G06930',
			'e_value' => '2e-19',
			'bit_score' => '90.9',
			'alignment_length' => '285',
			'identity_percentage' => '28.07',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_019G01080' => array(
			'gene_id' => 'CNC64A_019G01080',
			'e_value' => '6e-19',
			'bit_score' => '91.7',
			'alignment_length' => '202',
			'identity_percentage' => '32.67',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_100043g13' => array(
			'gene_id' => 'Naga_100043g13',
			'e_value' => '1e-18',
			'bit_score' => '90.5',
			'alignment_length' => '315',
			'identity_percentage' => '27.94',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_17G02230' => array(
			'gene_id' => 'OM_17G02230',
			'e_value' => '1e-17',
			'bit_score' => '87.8',
			'alignment_length' => '345',
			'identity_percentage' => '25.51',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ORCC809_16G00660' => array(
			'gene_id' => 'ORCC809_16G00660',
			'e_value' => '3e-17',
			'bit_score' => '86.3',
			'alignment_length' => '324',
			'identity_percentage' => '27.16',
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh664230' => array(
			'gene_id' => 'emh664230',
			'e_value' => '7e-15',
			'bit_score' => '79.3',
			'alignment_length' => '211',
			'identity_percentage' => '32.70',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh173790' => array(
			'gene_id' => 'emh173790',
			'e_value' => '1e-14',
			'bit_score' => '78.6',
			'alignment_length' => '211',
			'identity_percentage' => '32.70',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OL16G02020' => array(
			'gene_id' => 'OL16G02020',
			'e_value' => '3e-14',
			'bit_score' => '77.4',
			'alignment_length' => '326',
			'identity_percentage' => '25.77',
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0011G02170' => array(
			'gene_id' => 'AA0011G02170',
			'e_value' => '7e-13',
			'bit_score' => '70.5',
			'alignment_length' => '267',
			'identity_percentage' => '27.72',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_05G06940' => array(
			'gene_id' => 'MRCC299_05G06940',
			'e_value' => '4e-12',
			'bit_score' => '70.9',
			'alignment_length' => '328',
			'identity_percentage' => '27.13',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0002G05820' => array(
			'gene_id' => 'AA0002G05820',
			'e_value' => '2e-11',
			'bit_score' => '68.2',
			'alignment_length' => '280',
			'identity_percentage' => '28.57',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_20G01150' => array(
			'gene_id' => 'PTI_20G01150',
			'e_value' => '2e-10',
			'bit_score' => '65.9',
			'alignment_length' => '243',
			'identity_percentage' => '27.57',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh62480' => array(
			'gene_id' => 'emh62480',
			'e_value' => '2e-10',
			'bit_score' => '65.9',
			'alignment_length' => '213',
			'identity_percentage' => '29.11',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh466680' => array(
			'gene_id' => 'emh466680',
			'e_value' => '3e-10',
			'bit_score' => '65.5',
			'alignment_length' => '206',
			'identity_percentage' => '29.13',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh572420' => array(
			'gene_id' => 'emh572420',
			'e_value' => '7e-10',
			'bit_score' => '64.3',
			'alignment_length' => '213',
			'identity_percentage' => '28.64',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OT_17G01960' => array(
			'gene_id' => 'OT_17G01960',
			'e_value' => '1e-09',
			'bit_score' => '63.5',
			'alignment_length' => '326',
			'identity_percentage' => '23.31',
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0002G05810' => array(
			'gene_id' => 'AA0002G05810',
			'e_value' => '2e-09',
			'bit_score' => '62.8',
			'alignment_length' => '201',
			'identity_percentage' => '27.36',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh349180' => array(
			'gene_id' => 'emh349180',
			'e_value' => '5e-08',
			'bit_score' => '57.0',
			'alignment_length' => '192',
			'identity_percentage' => '29.17',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0263G00050' => array(
			'gene_id' => 'ES0263G00050',
			'e_value' => '1e-07',
			'bit_score' => '54.3',
			'alignment_length' => '122',
			'identity_percentage' => '31.97',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh734370' => array(
			'gene_id' => 'emh734370',
			'e_value' => '2e-06',
			'bit_score' => '52.4',
			'alignment_length' => '204',
			'identity_percentage' => '26.96',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		)
	),
	'similarity_hits_species' => array(
		'pse3' => array(
			(int) 0 => 'PI00G42800',
			(int) 1 => 'PI00G29440',
			(int) 2 => 'PI00G42810',
			(int) 3 => 'PI00G15880',
			(int) 4 => 'PI00G33460',
			(int) 5 => 'PI00G03960',
			(int) 6 => 'PI00G30540',
			(int) 7 => 'PI00G47900',
			(int) 8 => 'PI00G65760'
		),
		'prcc4223' => array(
			(int) 0 => 'RCC4223.07g03960',
			(int) 1 => 'RCC4223.03g08350',
			(int) 2 => 'RCC4223.07g03950',
			(int) 3 => 'RCC4223.02g06100',
			(int) 4 => 'RCC4223.01g01950',
			(int) 5 => 'RCC4223.03g07040',
			(int) 6 => 'RCC4223.01g05230'
		),
		'cnc64a' => array(
			(int) 0 => 'CNC64A_009G00520',
			(int) 1 => 'CNC64A_005G01530',
			(int) 2 => 'CNC64A_001G03160',
			(int) 3 => 'CNC64A_025G00190',
			(int) 4 => 'CNC64A_019G01080'
		),
		'tps' => array(
			(int) 0 => 'TP07G01900'
		),
		'ptri' => array(
			(int) 0 => 'PTI_12G00880',
			(int) 1 => 'PTI_20G01150'
		),
		'esi' => array(
			(int) 0 => 'ES0121G00040',
			(int) 1 => 'ES0121G00230',
			(int) 2 => 'ES0059G00510',
			(int) 3 => 'ES0263G00050'
		),
		'vca' => array(
			(int) 0 => 'VC00G18880',
			(int) 1 => 'VC00G18900'
		),
		'cvu' => array(
			(int) 0 => 'CV00G91850'
		),
		'hsp' => array(
			(int) 0 => 'HE0000G06670'
		),
		'aan' => array(
			(int) 0 => 'AA0012G00100',
			(int) 1 => 'AA0017G01560',
			(int) 2 => 'AA0007G00910',
			(int) 3 => 'AA0002G06930',
			(int) 4 => 'AA0011G02170',
			(int) 5 => 'AA0002G05820',
			(int) 6 => 'AA0002G05810'
		),
		'apr' => array(
			(int) 0 => 'AP00G23920'
		),
		'cre' => array(
			(int) 0 => 'CR03G07040',
			(int) 1 => 'CR02G10720',
			(int) 2 => 'CR03G06520'
		),
		'ddi' => array(
			(int) 0 => 'DDB_G0280263'
		),
		'nga' => array(
			(int) 0 => 'Naga_100043g13'
		),
		'ome' => array(
			(int) 0 => 'OM_17G02230'
		),
		'orcc809' => array(
			(int) 0 => 'ORCC809_16G00660'
		),
		'emh' => array(
			(int) 0 => 'emh664230',
			(int) 1 => 'emh173790',
			(int) 2 => 'emh62480',
			(int) 3 => 'emh466680',
			(int) 4 => 'emh572420',
			(int) 5 => 'emh349180',
			(int) 6 => 'emh734370'
		),
		'olu' => array(
			(int) 0 => 'OL16G02020'
		),
		'mrcc299' => array(
			(int) 0 => 'MRCC299_05G06940'
		),
		'ota' => array(
			(int) 0 => 'OT_17G01960'
		)
	),
	'gene_id' => 'PI00G42800',
	'all_species_index' => array(
		(int) 0 => array(
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'tax_id' => '13333'
		),
		(int) 1 => array(
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'tax_id' => '3702'
		),
		(int) 2 => array(
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'tax_id' => '763042'
		),
		(int) 3 => array(
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'tax_id' => '44056'
		),
		(int) 4 => array(
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'tax_id' => '3075'
		),
		(int) 5 => array(
			'species' => 'bprrcc1105',
			'common_name' => 'Bathycoccus prasinos',
			'tax_id' => '41875'
		),
		(int) 6 => array(
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'tax_id' => '6239'
		),
		(int) 7 => array(
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'tax_id' => '3055'
		),
		(int) 8 => array(
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'tax_id' => '310507'
		),
		(int) 9 => array(
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'tax_id' => '2769'
		),
		(int) 10 => array(
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'tax_id' => '574566'
		),
		(int) 11 => array(
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'tax_id' => '45157'
		),
		(int) 12 => array(
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'tax_id' => '44689'
		),
		(int) 13 => array(
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'tax_id' => '7227'
		),
		(int) 14 => array(
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'tax_id' => '2880'
		),
		(int) 15 => array(
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'tax_id' => '280463'
		),
		(int) 16 => array(
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'tax_id' => '186039'
		),
		(int) 17 => array(
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'tax_id' => '130081'
		),
		(int) 18 => array(
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'tax_id' => '145475'
		),
		(int) 19 => array(
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'tax_id' => '9606'
		),
		(int) 20 => array(
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'tax_id' => '564608'
		),
		(int) 21 => array(
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'tax_id' => '296587'
		),
		(int) 22 => array(
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'tax_id' => '10090'
		),
		(int) 23 => array(
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'tax_id' => '72520'
		),
		(int) 24 => array(
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'tax_id' => '4530'
		),
		(int) 25 => array(
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'tax_id' => '242159'
		),
		(int) 26 => array(
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'tax_id' => '1486918'
		),
		(int) 27 => array(
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'tax_id' => '385169'
		),
		(int) 28 => array(
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'tax_id' => '70448'
		),
		(int) 29 => array(
			'species' => 'pte',
			'common_name' => 'Paramecium tetraurelia',
			'tax_id' => '5888'
		),
		(int) 30 => array(
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'tax_id' => '2850'
		),
		(int) 31 => array(
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'tax_id' => '3218'
		),
		(int) 32 => array(
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'tax_id' => '67593'
		),
		(int) 33 => array(
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'tax_id' => '1470871'
		),
		(int) 34 => array(
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'tax_id' => '249344'
		),
		(int) 35 => array(
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'tax_id' => '4932'
		),
		(int) 36 => array(
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'tax_id' => '4896'
		),
		(int) 37 => array(
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'tax_id' => '35128'
		),
		(int) 38 => array(
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'tax_id' => '3067'
		)
	),
	'all_species' => array(
		'atr' => array(
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'tax_id' => '13333'
		),
		'ath' => array(
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'tax_id' => '3702'
		),
		'acg' => array(
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'tax_id' => '763042'
		),
		'aan' => array(
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'tax_id' => '44056'
		),
		'apr' => array(
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'tax_id' => '3075'
		),
		'bprrcc1105' => array(
			'species' => 'bprrcc1105',
			'common_name' => 'Bathycoccus prasinos',
			'tax_id' => '41875'
		),
		'cel' => array(
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'tax_id' => '6239'
		),
		'cre' => array(
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'tax_id' => '3055'
		),
		'cnc64a' => array(
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'tax_id' => '310507'
		),
		'ccr' => array(
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'tax_id' => '2769'
		),
		'cvu' => array(
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'tax_id' => '574566'
		),
		'cme' => array(
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'tax_id' => '45157'
		),
		'ddi' => array(
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'tax_id' => '44689'
		),
		'drm' => array(
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'tax_id' => '7227'
		),
		'esi' => array(
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'tax_id' => '2880'
		),
		'emh' => array(
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'tax_id' => '280463'
		),
		'fcy' => array(
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'tax_id' => '186039'
		),
		'gsu' => array(
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'tax_id' => '130081'
		),
		'hsp' => array(
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'tax_id' => '145475'
		),
		'hom' => array(
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'tax_id' => '9606'
		),
		'mpu' => array(
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'tax_id' => '564608'
		),
		'mrcc299' => array(
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'tax_id' => '296587'
		),
		'mus' => array(
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'tax_id' => '10090'
		),
		'nga' => array(
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'tax_id' => '72520'
		),
		'osa' => array(
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'tax_id' => '4530'
		),
		'olu' => array(
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'tax_id' => '242159'
		),
		'ome' => array(
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'tax_id' => '1486918'
		),
		'orcc809' => array(
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'tax_id' => '385169'
		),
		'ota' => array(
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'tax_id' => '70448'
		),
		'pte' => array(
			'species' => 'pte',
			'common_name' => 'Paramecium tetraurelia',
			'tax_id' => '5888'
		),
		'ptri' => array(
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'tax_id' => '2850'
		),
		'ppa' => array(
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'tax_id' => '3218'
		),
		'phs' => array(
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'tax_id' => '67593'
		),
		'pse3' => array(
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'tax_id' => '1470871'
		),
		'prcc4223' => array(
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'tax_id' => '249344'
		),
		'sac' => array(
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'tax_id' => '4932'
		),
		'scp' => array(
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'tax_id' => '4896'
		),
		'tps' => array(
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'tax_id' => '35128'
		),
		'vca' => array(
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'tax_id' => '3067'
		)
	),
	'gene_family_types_information' => array(
		'HOMFAM' => array(
			'id' => 'HOMFAM',
			'name' => 'Homologous gene family',
			'prefix' => 'HOM',
			'gene_type' => 'coding',
			'method' => '{}',
			'ancestry' => 'homology',
			'parent_id' => ''
		),
		'ORTHOFAM' => array(
			'id' => 'ORTHOFAM',
			'name' => 'Orthologous gene family',
			'prefix' => 'ORTH',
			'gene_type' => 'coding',
			'method' => '{}',
			'ancestry' => 'orthology',
			'parent_id' => 'HOMFAM'
		)
	),
	'gene_family_types_configuration' => array(),
	'data_identifier' => 'PI00G42800',
	'data_type' => 'gene_id',
	'allow_async_use' => true,
	'gene_placeholder' => 'OT_11G01240',
	'gf_placeholder' => 'HOM03P003327',
	'title_for_layout' => 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
)
$allowed_extra_sequences_types = array(
	'aa' => 'Protein',
	'dna' => 'DNA'
)
$allowed_editing_methods = array(
	'column' => 'Positions only',
	'row' => 'Genes only',
	'column_row' => 'Positions and Genes',
	'none' => 'No editing'
)
$allowed_tree_programs = array(
	'fasttree' => 'FastTree',
	'iqtree' => 'IQ-TREE (includes model testing)',
	'raxml' => 'RAxML',
	'phyml' => 'PhyML'
)
$allowed_msa_programs = array(
	'muscle' => 'MUSCLE',
	'mafft' => 'MAFFT'
)
$allowed_number_blasthits = array(
	(int) 0 => 'all',
	(int) 1 => (int) 20,
	(int) 2 => (int) 10,
	(int) 3 => (int) 5,
	(int) 4 => (int) 1
)
$similarity_hits_genes = array(
	'PI00G42800' => array(
		'gene_id' => 'PI00G42800',
		'e_value' => '0.0',
		'bit_score' => '709',
		'alignment_length' => '342',
		'identity_percentage' => '100.00',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P063421'
		)
	),
	'RCC4223.07g03960' => array(
		'gene_id' => 'RCC4223.07g03960',
		'e_value' => '0.0',
		'bit_score' => '666',
		'alignment_length' => '342',
		'identity_percentage' => '92.69',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P063421'
		)
	),
	'RCC4223.03g08350' => array(
		'gene_id' => 'RCC4223.03g08350',
		'e_value' => '3e-74',
		'bit_score' => '238',
		'alignment_length' => '342',
		'identity_percentage' => '39.18',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P033528'
		)
	),
	'PI00G29440' => array(
		'gene_id' => 'PI00G29440',
		'e_value' => '2e-70',
		'bit_score' => '229',
		'alignment_length' => '342',
		'identity_percentage' => '37.43',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P033528'
		)
	),
	'RCC4223.07g03950' => array(
		'gene_id' => 'RCC4223.07g03950',
		'e_value' => '4e-59',
		'bit_score' => '201',
		'alignment_length' => '361',
		'identity_percentage' => '37.40',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P062810'
		)
	),
	'PI00G42810' => array(
		'gene_id' => 'PI00G42810',
		'e_value' => '4e-55',
		'bit_score' => '190',
		'alignment_length' => '328',
		'identity_percentage' => '38.41',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P062810'
		)
	),
	'PI00G15880' => array(
		'gene_id' => 'PI00G15880',
		'e_value' => '3e-53',
		'bit_score' => '191',
		'alignment_length' => '315',
		'identity_percentage' => '36.19',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069125'
		)
	),
	'RCC4223.02g06100' => array(
		'gene_id' => 'RCC4223.02g06100',
		'e_value' => '2e-52',
		'bit_score' => '188',
		'alignment_length' => '315',
		'identity_percentage' => '35.87',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069125'
		)
	),
	'RCC4223.01g01950' => array(
		'gene_id' => 'RCC4223.01g01950',
		'e_value' => '9e-52',
		'bit_score' => '186',
		'alignment_length' => '324',
		'identity_percentage' => '35.49',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P073173'
		)
	),
	'PI00G33460' => array(
		'gene_id' => 'PI00G33460',
		'e_value' => '6e-51',
		'bit_score' => '185',
		'alignment_length' => '320',
		'identity_percentage' => '36.25',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P073173'
		)
	),
	'PI00G03960' => array(
		'gene_id' => 'PI00G03960',
		'e_value' => '1e-49',
		'bit_score' => '176',
		'alignment_length' => '324',
		'identity_percentage' => '36.73',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P096624'
		)
	),
	'RCC4223.03g07040' => array(
		'gene_id' => 'RCC4223.03g07040',
		'e_value' => '3e-49',
		'bit_score' => '174',
		'alignment_length' => '325',
		'identity_percentage' => '32.31',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069753'
		)
	),
	'CNC64A_009G00520' => array(
		'gene_id' => 'CNC64A_009G00520',
		'e_value' => '2e-47',
		'bit_score' => '168',
		'alignment_length' => '239',
		'identity_percentage' => '37.24',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P071593'
		)
	),
	'PI00G30540' => array(
		'gene_id' => 'PI00G30540',
		'e_value' => '3e-46',
		'bit_score' => '166',
		'alignment_length' => '323',
		'identity_percentage' => '31.58',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P069753'
		)
	),
	'TP07G01900' => array(
		'gene_id' => 'TP07G01900',
		'e_value' => '2e-39',
		'bit_score' => '145',
		'alignment_length' => '309',
		'identity_percentage' => '33.66',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'PTI_12G00880' => array(
		'gene_id' => 'PTI_12G00880',
		'e_value' => '2e-35',
		'bit_score' => '142',
		'alignment_length' => '308',
		'identity_percentage' => '32.79',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'PI00G47900' => array(
		'gene_id' => 'PI00G47900',
		'e_value' => '7e-35',
		'bit_score' => '137',
		'alignment_length' => '319',
		'identity_percentage' => '32.29',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'PI00G65760' => array(
		'gene_id' => 'PI00G65760',
		'e_value' => '1e-34',
		'bit_score' => '135',
		'alignment_length' => '321',
		'identity_percentage' => '31.15',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P130752'
		)
	),
	'RCC4223.01g05230' => array(
		'gene_id' => 'RCC4223.01g05230',
		'e_value' => '1e-34',
		'bit_score' => '136',
		'alignment_length' => '319',
		'identity_percentage' => '31.66',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'ES0121G00040' => array(
		'gene_id' => 'ES0121G00040',
		'e_value' => '5e-34',
		'bit_score' => '134',
		'alignment_length' => '304',
		'identity_percentage' => '31.25',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'VC00G18880' => array(
		'gene_id' => 'VC00G18880',
		'e_value' => '7e-34',
		'bit_score' => '131',
		'alignment_length' => '321',
		'identity_percentage' => '31.46',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'VC00G18900' => array(
		'gene_id' => 'VC00G18900',
		'e_value' => '7e-34',
		'bit_score' => '132',
		'alignment_length' => '321',
		'identity_percentage' => '31.78',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'ES0121G00230' => array(
		'gene_id' => 'ES0121G00230',
		'e_value' => '1e-32',
		'bit_score' => '129',
		'alignment_length' => '320',
		'identity_percentage' => '29.69',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'CV00G91850' => array(
		'gene_id' => 'CV00G91850',
		'e_value' => '9e-32',
		'bit_score' => '125',
		'alignment_length' => '315',
		'identity_percentage' => '32.70',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'HE0000G06670' => array(
		'gene_id' => 'HE0000G06670',
		'e_value' => '5e-31',
		'bit_score' => '122',
		'alignment_length' => '290',
		'identity_percentage' => '31.72',
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'ES0059G00510' => array(
		'gene_id' => 'ES0059G00510',
		'e_value' => '2e-29',
		'bit_score' => '124',
		'alignment_length' => '193',
		'identity_percentage' => '39.38',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P071593'
		)
	),
	'CNC64A_005G01530' => array(
		'gene_id' => 'CNC64A_005G01530',
		'e_value' => '1e-28',
		'bit_score' => '119',
		'alignment_length' => '316',
		'identity_percentage' => '31.96',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0012G00100' => array(
		'gene_id' => 'AA0012G00100',
		'e_value' => '6e-27',
		'bit_score' => '111',
		'alignment_length' => '314',
		'identity_percentage' => '29.62',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'CNC64A_001G03160' => array(
		'gene_id' => 'CNC64A_001G03160',
		'e_value' => '1e-26',
		'bit_score' => '112',
		'alignment_length' => '317',
		'identity_percentage' => '30.60',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'AP00G23920' => array(
		'gene_id' => 'AP00G23920',
		'e_value' => '4e-26',
		'bit_score' => '110',
		'alignment_length' => '315',
		'identity_percentage' => '27.62',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'CNC64A_081G00020' => array(
		'gene_id' => 'CNC64A_081G00020',
		'e_value' => '6e-23',
		'bit_score' => '99.4',
		'alignment_length' => '215',
		'identity_percentage' => '33.95',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P047980'
		)
	),
	'CNC64A_025G00190' => array(
		'gene_id' => 'CNC64A_025G00190',
		'e_value' => '2e-22',
		'bit_score' => '99.4',
		'alignment_length' => '215',
		'identity_percentage' => '33.95',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P047980'
		)
	),
	'CR03G07040' => array(
		'gene_id' => 'CR03G07040',
		'e_value' => '2e-22',
		'bit_score' => '102',
		'alignment_length' => '315',
		'identity_percentage' => '27.30',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'CR02G10720' => array(
		'gene_id' => 'CR02G10720',
		'e_value' => '9e-22',
		'bit_score' => '97.8',
		'alignment_length' => '324',
		'identity_percentage' => '27.78',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'AA0017G01560' => array(
		'gene_id' => 'AA0017G01560',
		'e_value' => '7e-21',
		'bit_score' => '94.0',
		'alignment_length' => '314',
		'identity_percentage' => '31.21',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'DDB_G0280263' => array(
		'gene_id' => 'DDB_G0280263',
		'e_value' => '8e-21',
		'bit_score' => '94.4',
		'alignment_length' => '307',
		'identity_percentage' => '27.69',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006431'
		)
	),
	'AA0007G00910' => array(
		'gene_id' => 'AA0007G00910',
		'e_value' => '2e-20',
		'bit_score' => '92.8',
		'alignment_length' => '319',
		'identity_percentage' => '29.47',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'CR03G06520' => array(
		'gene_id' => 'CR03G06520',
		'e_value' => '5e-20',
		'bit_score' => '93.2',
		'alignment_length' => '338',
		'identity_percentage' => '28.70',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P033528'
		)
	),
	'AA0002G06930' => array(
		'gene_id' => 'AA0002G06930',
		'e_value' => '2e-19',
		'bit_score' => '90.9',
		'alignment_length' => '285',
		'identity_percentage' => '28.07',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'CNC64A_019G01080' => array(
		'gene_id' => 'CNC64A_019G01080',
		'e_value' => '6e-19',
		'bit_score' => '91.7',
		'alignment_length' => '202',
		'identity_percentage' => '32.67',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'Naga_100043g13' => array(
		'gene_id' => 'Naga_100043g13',
		'e_value' => '1e-18',
		'bit_score' => '90.5',
		'alignment_length' => '315',
		'identity_percentage' => '27.94',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'OM_17G02230' => array(
		'gene_id' => 'OM_17G02230',
		'e_value' => '1e-17',
		'bit_score' => '87.8',
		'alignment_length' => '345',
		'identity_percentage' => '25.51',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'ORCC809_16G00660' => array(
		'gene_id' => 'ORCC809_16G00660',
		'e_value' => '3e-17',
		'bit_score' => '86.3',
		'alignment_length' => '324',
		'identity_percentage' => '27.16',
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'emh664230' => array(
		'gene_id' => 'emh664230',
		'e_value' => '7e-15',
		'bit_score' => '79.3',
		'alignment_length' => '211',
		'identity_percentage' => '32.70',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P049315'
		)
	),
	'emh173790' => array(
		'gene_id' => 'emh173790',
		'e_value' => '1e-14',
		'bit_score' => '78.6',
		'alignment_length' => '211',
		'identity_percentage' => '32.70',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P049315'
		)
	),
	'OL16G02020' => array(
		'gene_id' => 'OL16G02020',
		'e_value' => '3e-14',
		'bit_score' => '77.4',
		'alignment_length' => '326',
		'identity_percentage' => '25.77',
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0011G02170' => array(
		'gene_id' => 'AA0011G02170',
		'e_value' => '7e-13',
		'bit_score' => '70.5',
		'alignment_length' => '267',
		'identity_percentage' => '27.72',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'MRCC299_05G06940' => array(
		'gene_id' => 'MRCC299_05G06940',
		'e_value' => '4e-12',
		'bit_score' => '70.9',
		'alignment_length' => '328',
		'identity_percentage' => '27.13',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0002G05820' => array(
		'gene_id' => 'AA0002G05820',
		'e_value' => '2e-11',
		'bit_score' => '68.2',
		'alignment_length' => '280',
		'identity_percentage' => '28.57',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'PTI_20G01150' => array(
		'gene_id' => 'PTI_20G01150',
		'e_value' => '2e-10',
		'bit_score' => '65.9',
		'alignment_length' => '243',
		'identity_percentage' => '27.57',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P143054'
		)
	),
	'emh62480' => array(
		'gene_id' => 'emh62480',
		'e_value' => '2e-10',
		'bit_score' => '65.9',
		'alignment_length' => '213',
		'identity_percentage' => '29.11',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'emh466680' => array(
		'gene_id' => 'emh466680',
		'e_value' => '3e-10',
		'bit_score' => '65.5',
		'alignment_length' => '206',
		'identity_percentage' => '29.13',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'emh572420' => array(
		'gene_id' => 'emh572420',
		'e_value' => '7e-10',
		'bit_score' => '64.3',
		'alignment_length' => '213',
		'identity_percentage' => '28.64',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P006964',
			'ORTHOFAM' => 'ORTHO03P006259'
		)
	),
	'OT_17G01960' => array(
		'gene_id' => 'OT_17G01960',
		'e_value' => '1e-09',
		'bit_score' => '63.5',
		'alignment_length' => '326',
		'identity_percentage' => '23.31',
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'gf' => array(
			'HOMFAM' => 'HOM03P012932',
			'ORTHOFAM' => 'ORTHO03P012832'
		)
	),
	'AA0002G05810' => array(
		'gene_id' => 'AA0002G05810',
		'e_value' => '2e-09',
		'bit_score' => '62.8',
		'alignment_length' => '201',
		'identity_percentage' => '27.36',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'emh349180' => array(
		'gene_id' => 'emh349180',
		'e_value' => '5e-08',
		'bit_score' => '57.0',
		'alignment_length' => '192',
		'identity_percentage' => '29.17',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P113167'
		)
	),
	'ES0263G00050' => array(
		'gene_id' => 'ES0263G00050',
		'e_value' => '1e-07',
		'bit_score' => '54.3',
		'alignment_length' => '122',
		'identity_percentage' => '31.97',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	),
	'emh734370' => array(
		'gene_id' => 'emh734370',
		'e_value' => '2e-06',
		'bit_score' => '52.4',
		'alignment_length' => '204',
		'identity_percentage' => '26.96',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001374',
			'ORTHOFAM' => 'ORTHO03P012544'
		)
	)
)
$similarity_hits_species = array(
	'pse3' => array(
		(int) 0 => 'PI00G42800',
		(int) 1 => 'PI00G29440',
		(int) 2 => 'PI00G42810',
		(int) 3 => 'PI00G15880',
		(int) 4 => 'PI00G33460',
		(int) 5 => 'PI00G03960',
		(int) 6 => 'PI00G30540',
		(int) 7 => 'PI00G47900',
		(int) 8 => 'PI00G65760'
	),
	'prcc4223' => array(
		(int) 0 => 'RCC4223.07g03960',
		(int) 1 => 'RCC4223.03g08350',
		(int) 2 => 'RCC4223.07g03950',
		(int) 3 => 'RCC4223.02g06100',
		(int) 4 => 'RCC4223.01g01950',
		(int) 5 => 'RCC4223.03g07040',
		(int) 6 => 'RCC4223.01g05230'
	),
	'cnc64a' => array(
		(int) 0 => 'CNC64A_009G00520',
		(int) 1 => 'CNC64A_005G01530',
		(int) 2 => 'CNC64A_001G03160',
		(int) 3 => 'CNC64A_025G00190',
		(int) 4 => 'CNC64A_019G01080'
	),
	'tps' => array(
		(int) 0 => 'TP07G01900'
	),
	'ptri' => array(
		(int) 0 => 'PTI_12G00880',
		(int) 1 => 'PTI_20G01150'
	),
	'esi' => array(
		(int) 0 => 'ES0121G00040',
		(int) 1 => 'ES0121G00230',
		(int) 2 => 'ES0059G00510',
		(int) 3 => 'ES0263G00050'
	),
	'vca' => array(
		(int) 0 => 'VC00G18880',
		(int) 1 => 'VC00G18900'
	),
	'cvu' => array(
		(int) 0 => 'CV00G91850'
	),
	'hsp' => array(
		(int) 0 => 'HE0000G06670'
	),
	'aan' => array(
		(int) 0 => 'AA0012G00100',
		(int) 1 => 'AA0017G01560',
		(int) 2 => 'AA0007G00910',
		(int) 3 => 'AA0002G06930',
		(int) 4 => 'AA0011G02170',
		(int) 5 => 'AA0002G05820',
		(int) 6 => 'AA0002G05810'
	),
	'apr' => array(
		(int) 0 => 'AP00G23920'
	),
	'cre' => array(
		(int) 0 => 'CR03G07040',
		(int) 1 => 'CR02G10720',
		(int) 2 => 'CR03G06520'
	),
	'ddi' => array(
		(int) 0 => 'DDB_G0280263'
	),
	'nga' => array(
		(int) 0 => 'Naga_100043g13'
	),
	'ome' => array(
		(int) 0 => 'OM_17G02230'
	),
	'orcc809' => array(
		(int) 0 => 'ORCC809_16G00660'
	),
	'emh' => array(
		(int) 0 => 'emh664230',
		(int) 1 => 'emh173790',
		(int) 2 => 'emh62480',
		(int) 3 => 'emh466680',
		(int) 4 => 'emh572420',
		(int) 5 => 'emh349180',
		(int) 6 => 'emh734370'
	),
	'olu' => array(
		(int) 0 => 'OL16G02020'
	),
	'mrcc299' => array(
		(int) 0 => 'MRCC299_05G06940'
	),
	'ota' => array(
		(int) 0 => 'OT_17G01960'
	)
)
$gene_id = 'PI00G42800'
$all_species_index = array(
	(int) 0 => array(
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'tax_id' => '13333'
	),
	(int) 1 => array(
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'tax_id' => '3702'
	),
	(int) 2 => array(
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'tax_id' => '763042'
	),
	(int) 3 => array(
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'tax_id' => '44056'
	),
	(int) 4 => array(
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'tax_id' => '3075'
	),
	(int) 5 => array(
		'species' => 'bprrcc1105',
		'common_name' => 'Bathycoccus prasinos',
		'tax_id' => '41875'
	),
	(int) 6 => array(
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'tax_id' => '6239'
	),
	(int) 7 => array(
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'tax_id' => '3055'
	),
	(int) 8 => array(
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'tax_id' => '310507'
	),
	(int) 9 => array(
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'tax_id' => '2769'
	),
	(int) 10 => array(
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'tax_id' => '574566'
	),
	(int) 11 => array(
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'tax_id' => '45157'
	),
	(int) 12 => array(
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'tax_id' => '44689'
	),
	(int) 13 => array(
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'tax_id' => '7227'
	),
	(int) 14 => array(
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'tax_id' => '2880'
	),
	(int) 15 => array(
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'tax_id' => '280463'
	),
	(int) 16 => array(
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'tax_id' => '186039'
	),
	(int) 17 => array(
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'tax_id' => '130081'
	),
	(int) 18 => array(
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'tax_id' => '145475'
	),
	(int) 19 => array(
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'tax_id' => '9606'
	),
	(int) 20 => array(
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'tax_id' => '564608'
	),
	(int) 21 => array(
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'tax_id' => '296587'
	),
	(int) 22 => array(
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'tax_id' => '10090'
	),
	(int) 23 => array(
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'tax_id' => '72520'
	),
	(int) 24 => array(
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'tax_id' => '4530'
	),
	(int) 25 => array(
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'tax_id' => '242159'
	),
	(int) 26 => array(
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'tax_id' => '1486918'
	),
	(int) 27 => array(
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'tax_id' => '385169'
	),
	(int) 28 => array(
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'tax_id' => '70448'
	),
	(int) 29 => array(
		'species' => 'pte',
		'common_name' => 'Paramecium tetraurelia',
		'tax_id' => '5888'
	),
	(int) 30 => array(
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'tax_id' => '2850'
	),
	(int) 31 => array(
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'tax_id' => '3218'
	),
	(int) 32 => array(
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'tax_id' => '67593'
	),
	(int) 33 => array(
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'tax_id' => '1470871'
	),
	(int) 34 => array(
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'tax_id' => '249344'
	),
	(int) 35 => array(
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'tax_id' => '4932'
	),
	(int) 36 => array(
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'tax_id' => '4896'
	),
	(int) 37 => array(
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'tax_id' => '35128'
	),
	(int) 38 => array(
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'tax_id' => '3067'
	)
)
$all_species = array(
	'atr' => array(
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'tax_id' => '13333'
	),
	'ath' => array(
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'tax_id' => '3702'
	),
	'acg' => array(
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'tax_id' => '763042'
	),
	'aan' => array(
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'tax_id' => '44056'
	),
	'apr' => array(
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'tax_id' => '3075'
	),
	'bprrcc1105' => array(
		'species' => 'bprrcc1105',
		'common_name' => 'Bathycoccus prasinos',
		'tax_id' => '41875'
	),
	'cel' => array(
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'tax_id' => '6239'
	),
	'cre' => array(
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'tax_id' => '3055'
	),
	'cnc64a' => array(
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'tax_id' => '310507'
	),
	'ccr' => array(
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'tax_id' => '2769'
	),
	'cvu' => array(
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'tax_id' => '574566'
	),
	'cme' => array(
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'tax_id' => '45157'
	),
	'ddi' => array(
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'tax_id' => '44689'
	),
	'drm' => array(
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'tax_id' => '7227'
	),
	'esi' => array(
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'tax_id' => '2880'
	),
	'emh' => array(
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'tax_id' => '280463'
	),
	'fcy' => array(
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'tax_id' => '186039'
	),
	'gsu' => array(
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'tax_id' => '130081'
	),
	'hsp' => array(
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'tax_id' => '145475'
	),
	'hom' => array(
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'tax_id' => '9606'
	),
	'mpu' => array(
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'tax_id' => '564608'
	),
	'mrcc299' => array(
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'tax_id' => '296587'
	),
	'mus' => array(
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'tax_id' => '10090'
	),
	'nga' => array(
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'tax_id' => '72520'
	),
	'osa' => array(
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'tax_id' => '4530'
	),
	'olu' => array(
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'tax_id' => '242159'
	),
	'ome' => array(
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'tax_id' => '1486918'
	),
	'orcc809' => array(
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'tax_id' => '385169'
	),
	'ota' => array(
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'tax_id' => '70448'
	),
	'pte' => array(
		'species' => 'pte',
		'common_name' => 'Paramecium tetraurelia',
		'tax_id' => '5888'
	),
	'ptri' => array(
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'tax_id' => '2850'
	),
	'ppa' => array(
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'tax_id' => '3218'
	),
	'phs' => array(
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'tax_id' => '67593'
	),
	'pse3' => array(
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'tax_id' => '1470871'
	),
	'prcc4223' => array(
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'tax_id' => '249344'
	),
	'sac' => array(
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'tax_id' => '4932'
	),
	'scp' => array(
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'tax_id' => '4896'
	),
	'tps' => array(
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'tax_id' => '35128'
	),
	'vca' => array(
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'tax_id' => '3067'
	)
)
$gene_family_types_information = array(
	'HOMFAM' => array(
		'id' => 'HOMFAM',
		'name' => 'Homologous gene family',
		'prefix' => 'HOM',
		'gene_type' => 'coding',
		'method' => '{}',
		'ancestry' => 'homology',
		'parent_id' => ''
	),
	'ORTHOFAM' => array(
		'id' => 'ORTHOFAM',
		'name' => 'Orthologous gene family',
		'prefix' => 'ORTH',
		'gene_type' => 'coding',
		'method' => '{}',
		'ancestry' => 'orthology',
		'parent_id' => 'HOMFAM'
	)
)
$gene_family_types_configuration = array()
$data_identifier = 'PI00G42800'
$data_type = 'gene_id'
$allow_async_use = true
$gene_placeholder = 'OT_11G01240'
$gf_placeholder = 'HOM03P003327'
$title_for_layout = 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
$collapse1 = ''
$collapse2 = 'collapse in'
$similarity_hit = array(
	'gene_id' => 'CNC64A_081G00020',
	'e_value' => '6e-23',
	'bit_score' => '99.4',
	'alignment_length' => '215',
	'identity_percentage' => '33.95',
	'gf' => array(
		'HOMFAM' => 'HOM03P001374',
		'ORTHOFAM' => 'ORTHO03P047980'
	)
)
$checked = null
$similarity_hit_gene = 'CNC64A_081G00020'
include - APP/View/Analysis/custom_tree_creation.ctp, line 169
View::_evaluate() - CORE/Cake/View/View.php, line 971
View::_render() - CORE/Cake/View/View.php, line 933
View::render() - CORE/Cake/View/View.php, line 473
Controller::render() - CORE/Cake/Controller/Controller.php, line 963
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167
[main] - APP/webroot/index.php, line 146

Gene ID	Organism	E-value	Bitscore	Alignment Length	Identity Percentage
PI00G42800	Picochlorum sp. SENEW3 (SE3)	0.0	709	342	100.00
RCC4223.07g03960	Picochlorum_RCC4223	0.0	666	342	92.69
RCC4223.03g08350	Picochlorum_RCC4223	3e-74	238	342	39.18
PI00G29440	Picochlorum sp. SENEW3 (SE3)	2e-70	229	342	37.43
RCC4223.07g03950	Picochlorum_RCC4223	4e-59	201	361	37.40
PI00G42810	Picochlorum sp. SENEW3 (SE3)	4e-55	190	328	38.41
PI00G15880	Picochlorum sp. SENEW3 (SE3)	3e-53	191	315	36.19
RCC4223.02g06100	Picochlorum_RCC4223	2e-52	188	315	35.87
RCC4223.01g01950	Picochlorum_RCC4223	9e-52	186	324	35.49
PI00G33460	Picochlorum sp. SENEW3 (SE3)	6e-51	185	320	36.25
PI00G03960	Picochlorum sp. SENEW3 (SE3)	1e-49	176	324	36.73
RCC4223.03g07040	Picochlorum_RCC4223	3e-49	174	325	32.31
CNC64A_009G00520	Chlorella sp NC64A	2e-47	168	239	37.24
PI00G30540	Picochlorum sp. SENEW3 (SE3)	3e-46	166	323	31.58
TP07G01900	Thalassiosira pseudonana	2e-39	145	309	33.66
PTI_12G00880	Phaeodactylum tricornutum	2e-35	142	308	32.79
PI00G47900	Picochlorum sp. SENEW3 (SE3)	7e-35	137	319	32.29
PI00G65760	Picochlorum sp. SENEW3 (SE3)	1e-34	135	321	31.15
RCC4223.01g05230	Picochlorum_RCC4223	1e-34	136	319	31.66
ES0121G00040	Ectocarpus siliculosus	5e-34	134	304	31.25
VC00G18880	Volvox carteri	7e-34	131	321	31.46
VC00G18900	Volvox carteri	7e-34	132	321	31.78
ES0121G00230	Ectocarpus siliculosus	1e-32	129	320	29.69
CV00G91850	Coccomyxa subellipsoidea C-169	9e-32	125	315	32.70
HE0000G06670	Helicosporidium sp.	5e-31	122	290	31.72
ES0059G00510	Ectocarpus siliculosus	2e-29	124	193	39.38
CNC64A_005G01530	Chlorella sp NC64A	1e-28	119	316	31.96
AA0012G00100	Aureococcus anophagefferens	6e-27	111	314	29.62
CNC64A_001G03160	Chlorella sp NC64A	1e-26	112	317	30.60
AP00G23920	Auxenochlorella protothecoides	4e-26	110	315	27.62
CNC64A_081G00020		6e-23	99.4	215	33.95
CNC64A_025G00190	Chlorella sp NC64A	2e-22	99.4	215	33.95
CR03G07040	Chlamydomonas reinhardtii	2e-22	102	315	27.30
CR02G10720	Chlamydomonas reinhardtii	9e-22	97.8	324	27.78
AA0017G01560	Aureococcus anophagefferens	7e-21	94.0	314	31.21
DDB_G0280263	Dictyostelium discoideum	8e-21	94.4	307	27.69
AA0007G00910	Aureococcus anophagefferens	2e-20	92.8	319	29.47
CR03G06520	Chlamydomonas reinhardtii	5e-20	93.2	338	28.70
AA0002G06930	Aureococcus anophagefferens	2e-19	90.9	285	28.07
CNC64A_019G01080	Chlorella sp NC64A	6e-19	91.7	202	32.67
Naga_100043g13	Nannochloropsis gaditana	1e-18	90.5	315	27.94
OM_17G02230	Ostreococcus mediterraneus	1e-17	87.8	345	25.51
ORCC809_16G00660	Ostreococcus sp RCC809	3e-17	86.3	324	27.16
emh664230	Emiliania huxleyi	7e-15	79.3	211	32.70
emh173790	Emiliania huxleyi	1e-14	78.6	211	32.70
OL16G02020	Ostreococcus lucimarinus	3e-14	77.4	326	25.77
AA0011G02170	Aureococcus anophagefferens	7e-13	70.5	267	27.72
MRCC299_05G06940	Micromonas sp RCC299	4e-12	70.9	328	27.13
AA0002G05820	Aureococcus anophagefferens	2e-11	68.2	280	28.57
PTI_20G01150	Phaeodactylum tricornutum	2e-10	65.9	243	27.57
emh62480	Emiliania huxleyi	2e-10	65.9	213	29.11
emh466680	Emiliania huxleyi	3e-10	65.5	206	29.13
emh572420	Emiliania huxleyi	7e-10	64.3	213	28.64
OT_17G01960	Ostreococcus tauri	1e-09	63.5	326	23.31
AA0002G05810	Aureococcus anophagefferens	2e-09	62.8	201	27.36
emh349180	Emiliania huxleyi	5e-08	57.0	192	29.17
ES0263G00050	Ectocarpus siliculosus	1e-07	54.3	122	31.97
emh734370	Emiliania huxleyi	2e-06	52.4	204	26.96

External Sequences (optional)

External Sequences Type

Program Settings

MSA algorithm
Tree construction algorithm
Edit MSA alignment