Pico-PLAZA 3.0 : Interactive Phylogenetics Module

Interactive Phylogenetics Module

Gene Id: AT3G07080

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(
		'AT3G07080' => array(
			'gene_id' => 'AT3G07080',
			'e_value' => '0.0',
			'bit_score' => '874',
			'alignment_length' => '439',
			'identity_percentage' => '100.00',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS06G46820' => array(
			'gene_id' => 'OS06G46820',
			'e_value' => '5e-157',
			'bit_score' => '459',
			'alignment_length' => '432',
			'identity_percentage' => '62.27',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00067G01560' => array(
			'gene_id' => 'ATR_00067G01560',
			'e_value' => '1e-152',
			'bit_score' => '447',
			'alignment_length' => '433',
			'identity_percentage' => '62.36',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00183G00390' => array(
			'gene_id' => 'PP00183G00390',
			'e_value' => '2e-120',
			'bit_score' => '364',
			'alignment_length' => '407',
			'identity_percentage' => '52.09',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G00650' => array(
			'gene_id' => 'AP00G00650',
			'e_value' => '3e-59',
			'bit_score' => '205',
			'alignment_length' => '432',
			'identity_percentage' => '34.72',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.05g01720' => array(
			'gene_id' => 'RCC4223.05g01720',
			'e_value' => '6e-57',
			'bit_score' => '198',
			'alignment_length' => '357',
			'identity_percentage' => '37.25',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AC00G01420' => array(
			'gene_id' => 'AC00G01420',
			'e_value' => '2e-56',
			'bit_score' => '197',
			'alignment_length' => '382',
			'identity_percentage' => '34.82',
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G17650' => array(
			'gene_id' => 'PI00G17650',
			'e_value' => '2e-56',
			'bit_score' => '197',
			'alignment_length' => '368',
			'identity_percentage' => '36.41',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AC00G01410' => array(
			'gene_id' => 'AC00G01410',
			'e_value' => '4e-54',
			'bit_score' => '191',
			'alignment_length' => '382',
			'identity_percentage' => '34.55',
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ORCC809_13G02340' => array(
			'gene_id' => 'ORCC809_13G02340',
			'e_value' => '6e-54',
			'bit_score' => '192',
			'alignment_length' => '427',
			'identity_percentage' => '33.72',
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_044G00110' => array(
			'gene_id' => 'CNC64A_044G00110',
			'e_value' => '2e-53',
			'bit_score' => '192',
			'alignment_length' => '257',
			'identity_percentage' => '43.58',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_08G03760' => array(
			'gene_id' => 'OM_08G03760',
			'e_value' => '6e-51',
			'bit_score' => '184',
			'alignment_length' => '412',
			'identity_percentage' => '32.52',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_100154g12' => array(
			'gene_id' => 'Naga_100154g12',
			'e_value' => '1e-50',
			'bit_score' => '182',
			'alignment_length' => '395',
			'identity_percentage' => '35.44',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OL13G00700' => array(
			'gene_id' => 'OL13G00700',
			'e_value' => '1e-48',
			'bit_score' => '177',
			'alignment_length' => '409',
			'identity_percentage' => '32.52',
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0041G00390' => array(
			'gene_id' => 'ES0041G00390',
			'e_value' => '2e-48',
			'bit_score' => '178',
			'alignment_length' => '402',
			'identity_percentage' => '31.84',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs374300' => array(
			'gene_id' => 'phs374300',
			'e_value' => '3e-47',
			'bit_score' => '173',
			'alignment_length' => '270',
			'identity_percentage' => '41.48',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_05G06230' => array(
			'gene_id' => 'MRCC299_05G06230',
			'e_value' => '5e-46',
			'bit_score' => '169',
			'alignment_length' => '421',
			'identity_percentage' => '32.54',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_06G02190' => array(
			'gene_id' => 'PTI_06G02190',
			'e_value' => '1e-44',
			'bit_score' => '166',
			'alignment_length' => '395',
			'identity_percentage' => '32.91',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OT_13G00720' => array(
			'gene_id' => 'OT_13G00720',
			'e_value' => '7e-44',
			'bit_score' => '164',
			'alignment_length' => '431',
			'identity_percentage' => '31.09',
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC003G05990' => array(
			'gene_id' => 'FC003G05990',
			'e_value' => '8e-42',
			'bit_score' => '157',
			'alignment_length' => '252',
			'identity_percentage' => '38.89',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00004G00730' => array(
			'gene_id' => 'PP00004G00730',
			'e_value' => '1e-40',
			'bit_score' => '154',
			'alignment_length' => '419',
			'identity_percentage' => '29.59',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MP16G02340' => array(
			'gene_id' => 'MP16G02340',
			'e_value' => '6e-40',
			'bit_score' => '153',
			'alignment_length' => '238',
			'identity_percentage' => '41.60',
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0275793' => array(
			'gene_id' => 'DDB_G0275793',
			'e_value' => '2e-39',
			'bit_score' => '153',
			'alignment_length' => '407',
			'identity_percentage' => '27.76',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs231730' => array(
			'gene_id' => 'phs231730',
			'e_value' => '2e-38',
			'bit_score' => '151',
			'alignment_length' => '235',
			'identity_percentage' => '38.30',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G04130' => array(
			'gene_id' => 'VC00G04130',
			'e_value' => '7e-38',
			'bit_score' => '148',
			'alignment_length' => '237',
			'identity_percentage' => '36.29',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00057G00740' => array(
			'gene_id' => 'PP00057G00740',
			'e_value' => '2e-37',
			'bit_score' => '145',
			'alignment_length' => '412',
			'identity_percentage' => '29.37',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'YML018C' => array(
			'gene_id' => 'YML018C',
			'e_value' => '3e-37',
			'bit_score' => '145',
			'alignment_length' => '407',
			'identity_percentage' => '28.99',
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSG00000115084' => array(
			'gene_id' => 'ENSG00000115084',
			'e_value' => '1e-35',
			'bit_score' => '142',
			'alignment_length' => '410',
			'identity_percentage' => '28.54',
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSMUSG00000026342' => array(
			'gene_id' => 'ENSMUSG00000026342',
			'e_value' => '9e-35',
			'bit_score' => '139',
			'alignment_length' => '420',
			'identity_percentage' => '29.52',
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP03G08070' => array(
			'gene_id' => 'TP03G08070',
			'e_value' => '2e-34',
			'bit_score' => '138',
			'alignment_length' => '497',
			'identity_percentage' => '25.75',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G78220' => array(
			'gene_id' => 'CV00G78220',
			'e_value' => '3e-34',
			'bit_score' => '134',
			'alignment_length' => '252',
			'identity_percentage' => '36.51',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00033G01710' => array(
			'gene_id' => 'ATR_00033G01710',
			'e_value' => '2e-33',
			'bit_score' => '134',
			'alignment_length' => '417',
			'identity_percentage' => '27.34',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT4G32140' => array(
			'gene_id' => 'AT4G32140',
			'e_value' => '5e-33',
			'bit_score' => '133',
			'alignment_length' => '420',
			'identity_percentage' => '27.62',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_20G02470' => array(
			'gene_id' => 'PTI_20G02470',
			'e_value' => '1e-32',
			'bit_score' => '132',
			'alignment_length' => '399',
			'identity_percentage' => '29.32',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR07G09790' => array(
			'gene_id' => 'CR07G09790',
			'e_value' => '3e-32',
			'bit_score' => '131',
			'alignment_length' => '231',
			'identity_percentage' => '38.53',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ccr88040' => array(
			'gene_id' => 'ccr88040',
			'e_value' => '2e-31',
			'bit_score' => '129',
			'alignment_length' => '398',
			'identity_percentage' => '29.15',
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS04G55260' => array(
			'gene_id' => 'OS04G55260',
			'e_value' => '9e-31',
			'bit_score' => '126',
			'alignment_length' => '401',
			'identity_percentage' => '26.93',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_03G04810' => array(
			'gene_id' => 'PTI_03G04810',
			'e_value' => '7e-30',
			'bit_score' => '124',
			'alignment_length' => '439',
			'identity_percentage' => '28.70',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'gsu09690' => array(
			'gene_id' => 'gsu09690',
			'e_value' => '2e-29',
			'bit_score' => '122',
			'alignment_length' => '270',
			'identity_percentage' => '30.74',
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FBgn0034032' => array(
			'gene_id' => 'FBgn0034032',
			'e_value' => '3e-29',
			'bit_score' => '122',
			'alignment_length' => '425',
			'identity_percentage' => '26.35',
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh481350' => array(
			'gene_id' => 'emh481350',
			'e_value' => '2e-26',
			'bit_score' => '112',
			'alignment_length' => '238',
			'identity_percentage' => '34.87',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh123820' => array(
			'gene_id' => 'emh123820',
			'e_value' => '4e-26',
			'bit_score' => '112',
			'alignment_length' => '316',
			'identity_percentage' => '33.23',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh620110' => array(
			'gene_id' => 'emh620110',
			'e_value' => '4e-26',
			'bit_score' => '112',
			'alignment_length' => '316',
			'identity_percentage' => '33.23',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'YDR438W' => array(
			'gene_id' => 'YDR438W',
			'e_value' => '5e-23',
			'bit_score' => '103',
			'alignment_length' => '252',
			'identity_percentage' => '32.94',
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CM02G00770' => array(
			'gene_id' => 'CM02G00770',
			'e_value' => '1e-22',
			'bit_score' => '102',
			'alignment_length' => '390',
			'identity_percentage' => '28.46',
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'SPBC405.03c' => array(
			'gene_id' => 'SPBC405.03c',
			'e_value' => '5e-18',
			'bit_score' => '88.6',
			'alignment_length' => '242',
			'identity_percentage' => '32.64',
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh282220' => array(
			'gene_id' => 'emh282220',
			'e_value' => '1e-16',
			'bit_score' => '85.1',
			'alignment_length' => '267',
			'identity_percentage' => '28.84',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh741600' => array(
			'gene_id' => 'emh741600',
			'e_value' => '1e-14',
			'bit_score' => '80.5',
			'alignment_length' => '260',
			'identity_percentage' => '29.23',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00019G00470' => array(
			'gene_id' => 'ATR_00019G00470',
			'e_value' => '1e-10',
			'bit_score' => '64.3',
			'alignment_length' => '165',
			'identity_percentage' => '27.88',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0291462' => array(
			'gene_id' => 'DDB_G0291462',
			'e_value' => '1e-09',
			'bit_score' => '63.5',
			'alignment_length' => '166',
			'identity_percentage' => '30.12',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0291888' => array(
			'gene_id' => 'DDB_G0291888',
			'e_value' => '5e-09',
			'bit_score' => '62.0',
			'alignment_length' => '193',
			'identity_percentage' => '31.09',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs118910' => array(
			'gene_id' => 'phs118910',
			'e_value' => '1e-07',
			'bit_score' => '57.0',
			'alignment_length' => '259',
			'identity_percentage' => '22.39',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSG00000183780' => array(
			'gene_id' => 'ENSG00000183780',
			'e_value' => '4e-07',
			'bit_score' => '56.2',
			'alignment_length' => '205',
			'identity_percentage' => '22.93',
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSMUSG00000057060' => array(
			'gene_id' => 'ENSMUSG00000057060',
			'e_value' => '4e-07',
			'bit_score' => '55.8',
			'alignment_length' => '205',
			'identity_percentage' => '23.90',
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0019G01090' => array(
			'gene_id' => 'AA0019G01090',
			'e_value' => '6e-07',
			'bit_score' => '55.8',
			'alignment_length' => '219',
			'identity_percentage' => '25.57',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'WBGene00015009' => array(
			'gene_id' => 'WBGene00015009',
			'e_value' => '1e-06',
			'bit_score' => '54.7',
			'alignment_length' => '227',
			'identity_percentage' => '24.23',
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_05G01770' => array(
			'gene_id' => 'OM_05G01770',
			'e_value' => '1e-06',
			'bit_score' => '54.3',
			'alignment_length' => '148',
			'identity_percentage' => '29.05',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT3G59340' => array(
			'gene_id' => 'AT3G59340',
			'e_value' => '5e-06',
			'bit_score' => '52.0',
			'alignment_length' => '110',
			'identity_percentage' => '30.00',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		)
	),
	'similarity_hits_species' => array(
		'ath' => array(
			(int) 0 => 'AT3G07080',
			(int) 1 => 'AT4G32140',
			(int) 2 => 'AT3G59340'
		),
		'osa' => array(
			(int) 0 => 'OS06G46820',
			(int) 1 => 'OS04G55260'
		),
		'atr' => array(
			(int) 0 => 'ATR_00067G01560',
			(int) 1 => 'ATR_00033G01710',
			(int) 2 => 'ATR_00019G00470'
		),
		'ppa' => array(
			(int) 0 => 'PP00183G00390',
			(int) 1 => 'PP00004G00730',
			(int) 2 => 'PP00057G00740'
		),
		'apr' => array(
			(int) 0 => 'AP00G00650'
		),
		'prcc4223' => array(
			(int) 0 => 'RCC4223.05g01720'
		),
		'acg' => array(
			(int) 0 => 'AC00G01420',
			(int) 1 => 'AC00G01410'
		),
		'pse3' => array(
			(int) 0 => 'PI00G17650'
		),
		'orcc809' => array(
			(int) 0 => 'ORCC809_13G02340'
		),
		'ome' => array(
			(int) 0 => 'OM_08G03760',
			(int) 1 => 'OM_05G01770'
		),
		'nga' => array(
			(int) 0 => 'Naga_100154g12'
		),
		'olu' => array(
			(int) 0 => 'OL13G00700'
		),
		'esi' => array(
			(int) 0 => 'ES0041G00390'
		),
		'phs' => array(
			(int) 0 => 'phs374300',
			(int) 1 => 'phs231730',
			(int) 2 => 'phs118910'
		),
		'mrcc299' => array(
			(int) 0 => 'MRCC299_05G06230'
		),
		'ptri' => array(
			(int) 0 => 'PTI_06G02190',
			(int) 1 => 'PTI_20G02470',
			(int) 2 => 'PTI_03G04810'
		),
		'ota' => array(
			(int) 0 => 'OT_13G00720'
		),
		'fcy' => array(
			(int) 0 => 'FC003G05990'
		),
		'mpu' => array(
			(int) 0 => 'MP16G02340'
		),
		'ddi' => array(
			(int) 0 => 'DDB_G0275793',
			(int) 1 => 'DDB_G0291462',
			(int) 2 => 'DDB_G0291888'
		),
		'vca' => array(
			(int) 0 => 'VC00G04130'
		),
		'sac' => array(
			(int) 0 => 'YML018C',
			(int) 1 => 'YDR438W'
		),
		'hom' => array(
			(int) 0 => 'ENSG00000115084',
			(int) 1 => 'ENSG00000183780'
		),
		'mus' => array(
			(int) 0 => 'ENSMUSG00000026342',
			(int) 1 => 'ENSMUSG00000057060'
		),
		'tps' => array(
			(int) 0 => 'TP03G08070'
		),
		'cvu' => array(
			(int) 0 => 'CV00G78220'
		),
		'cre' => array(
			(int) 0 => 'CR07G09790'
		),
		'ccr' => array(
			(int) 0 => 'ccr88040'
		),
		'gsu' => array(
			(int) 0 => 'gsu09690'
		),
		'drm' => array(
			(int) 0 => 'FBgn0034032'
		),
		'emh' => array(
			(int) 0 => 'emh481350',
			(int) 1 => 'emh123820',
			(int) 2 => 'emh620110',
			(int) 3 => 'emh282220',
			(int) 4 => 'emh741600'
		),
		'cme' => array(
			(int) 0 => 'CM02G00770'
		),
		'scp' => array(
			(int) 0 => 'SPBC405.03c'
		),
		'aan' => array(
			(int) 0 => 'AA0019G01090'
		),
		'cel' => array(
			(int) 0 => 'WBGene00015009'
		)
	),
	'gene_id' => 'AT3G07080',
	'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' => 'AT3G07080',
	'data_type' => 'gene_id',
	'allow_async_use' => true,
	'gene_placeholder' => 'DDB_G0277233',
	'gf_placeholder' => 'HOM03P023336',
	'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(
	'AT3G07080' => array(
		'gene_id' => 'AT3G07080',
		'e_value' => '0.0',
		'bit_score' => '874',
		'alignment_length' => '439',
		'identity_percentage' => '100.00',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OS06G46820' => array(
		'gene_id' => 'OS06G46820',
		'e_value' => '5e-157',
		'bit_score' => '459',
		'alignment_length' => '432',
		'identity_percentage' => '62.27',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ATR_00067G01560' => array(
		'gene_id' => 'ATR_00067G01560',
		'e_value' => '1e-152',
		'bit_score' => '447',
		'alignment_length' => '433',
		'identity_percentage' => '62.36',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PP00183G00390' => array(
		'gene_id' => 'PP00183G00390',
		'e_value' => '2e-120',
		'bit_score' => '364',
		'alignment_length' => '407',
		'identity_percentage' => '52.09',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'AP00G00650' => array(
		'gene_id' => 'AP00G00650',
		'e_value' => '3e-59',
		'bit_score' => '205',
		'alignment_length' => '432',
		'identity_percentage' => '34.72',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'RCC4223.05g01720' => array(
		'gene_id' => 'RCC4223.05g01720',
		'e_value' => '6e-57',
		'bit_score' => '198',
		'alignment_length' => '357',
		'identity_percentage' => '37.25',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'AC00G01420' => array(
		'gene_id' => 'AC00G01420',
		'e_value' => '2e-56',
		'bit_score' => '197',
		'alignment_length' => '382',
		'identity_percentage' => '34.82',
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PI00G17650' => array(
		'gene_id' => 'PI00G17650',
		'e_value' => '2e-56',
		'bit_score' => '197',
		'alignment_length' => '368',
		'identity_percentage' => '36.41',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'AC00G01410' => array(
		'gene_id' => 'AC00G01410',
		'e_value' => '4e-54',
		'bit_score' => '191',
		'alignment_length' => '382',
		'identity_percentage' => '34.55',
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ORCC809_13G02340' => array(
		'gene_id' => 'ORCC809_13G02340',
		'e_value' => '6e-54',
		'bit_score' => '192',
		'alignment_length' => '427',
		'identity_percentage' => '33.72',
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'CNC64A_044G00110' => array(
		'gene_id' => 'CNC64A_044G00110',
		'e_value' => '2e-53',
		'bit_score' => '192',
		'alignment_length' => '257',
		'identity_percentage' => '43.58',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OM_08G03760' => array(
		'gene_id' => 'OM_08G03760',
		'e_value' => '6e-51',
		'bit_score' => '184',
		'alignment_length' => '412',
		'identity_percentage' => '32.52',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'Naga_100154g12' => array(
		'gene_id' => 'Naga_100154g12',
		'e_value' => '1e-50',
		'bit_score' => '182',
		'alignment_length' => '395',
		'identity_percentage' => '35.44',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OL13G00700' => array(
		'gene_id' => 'OL13G00700',
		'e_value' => '1e-48',
		'bit_score' => '177',
		'alignment_length' => '409',
		'identity_percentage' => '32.52',
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ES0041G00390' => array(
		'gene_id' => 'ES0041G00390',
		'e_value' => '2e-48',
		'bit_score' => '178',
		'alignment_length' => '402',
		'identity_percentage' => '31.84',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'phs374300' => array(
		'gene_id' => 'phs374300',
		'e_value' => '3e-47',
		'bit_score' => '173',
		'alignment_length' => '270',
		'identity_percentage' => '41.48',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'MRCC299_05G06230' => array(
		'gene_id' => 'MRCC299_05G06230',
		'e_value' => '5e-46',
		'bit_score' => '169',
		'alignment_length' => '421',
		'identity_percentage' => '32.54',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PTI_06G02190' => array(
		'gene_id' => 'PTI_06G02190',
		'e_value' => '1e-44',
		'bit_score' => '166',
		'alignment_length' => '395',
		'identity_percentage' => '32.91',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OT_13G00720' => array(
		'gene_id' => 'OT_13G00720',
		'e_value' => '7e-44',
		'bit_score' => '164',
		'alignment_length' => '431',
		'identity_percentage' => '31.09',
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'FC003G05990' => array(
		'gene_id' => 'FC003G05990',
		'e_value' => '8e-42',
		'bit_score' => '157',
		'alignment_length' => '252',
		'identity_percentage' => '38.89',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PP00004G00730' => array(
		'gene_id' => 'PP00004G00730',
		'e_value' => '1e-40',
		'bit_score' => '154',
		'alignment_length' => '419',
		'identity_percentage' => '29.59',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'MP16G02340' => array(
		'gene_id' => 'MP16G02340',
		'e_value' => '6e-40',
		'bit_score' => '153',
		'alignment_length' => '238',
		'identity_percentage' => '41.60',
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'DDB_G0275793' => array(
		'gene_id' => 'DDB_G0275793',
		'e_value' => '2e-39',
		'bit_score' => '153',
		'alignment_length' => '407',
		'identity_percentage' => '27.76',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'phs231730' => array(
		'gene_id' => 'phs231730',
		'e_value' => '2e-38',
		'bit_score' => '151',
		'alignment_length' => '235',
		'identity_percentage' => '38.30',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P002873',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'VC00G04130' => array(
		'gene_id' => 'VC00G04130',
		'e_value' => '7e-38',
		'bit_score' => '148',
		'alignment_length' => '237',
		'identity_percentage' => '36.29',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PP00057G00740' => array(
		'gene_id' => 'PP00057G00740',
		'e_value' => '2e-37',
		'bit_score' => '145',
		'alignment_length' => '412',
		'identity_percentage' => '29.37',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'YML018C' => array(
		'gene_id' => 'YML018C',
		'e_value' => '3e-37',
		'bit_score' => '145',
		'alignment_length' => '407',
		'identity_percentage' => '28.99',
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'ENSG00000115084' => array(
		'gene_id' => 'ENSG00000115084',
		'e_value' => '1e-35',
		'bit_score' => '142',
		'alignment_length' => '410',
		'identity_percentage' => '28.54',
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'ENSMUSG00000026342' => array(
		'gene_id' => 'ENSMUSG00000026342',
		'e_value' => '9e-35',
		'bit_score' => '139',
		'alignment_length' => '420',
		'identity_percentage' => '29.52',
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'TP03G08070' => array(
		'gene_id' => 'TP03G08070',
		'e_value' => '2e-34',
		'bit_score' => '138',
		'alignment_length' => '497',
		'identity_percentage' => '25.75',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'CV00G78220' => array(
		'gene_id' => 'CV00G78220',
		'e_value' => '3e-34',
		'bit_score' => '134',
		'alignment_length' => '252',
		'identity_percentage' => '36.51',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ATR_00033G01710' => array(
		'gene_id' => 'ATR_00033G01710',
		'e_value' => '2e-33',
		'bit_score' => '134',
		'alignment_length' => '417',
		'identity_percentage' => '27.34',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'AT4G32140' => array(
		'gene_id' => 'AT4G32140',
		'e_value' => '5e-33',
		'bit_score' => '133',
		'alignment_length' => '420',
		'identity_percentage' => '27.62',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'PTI_20G02470' => array(
		'gene_id' => 'PTI_20G02470',
		'e_value' => '1e-32',
		'bit_score' => '132',
		'alignment_length' => '399',
		'identity_percentage' => '29.32',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P034433'
		)
	),
	'CR07G09790' => array(
		'gene_id' => 'CR07G09790',
		'e_value' => '3e-32',
		'bit_score' => '131',
		'alignment_length' => '231',
		'identity_percentage' => '38.53',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ccr88040' => array(
		'gene_id' => 'ccr88040',
		'e_value' => '2e-31',
		'bit_score' => '129',
		'alignment_length' => '398',
		'identity_percentage' => '29.15',
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'OS04G55260' => array(
		'gene_id' => 'OS04G55260',
		'e_value' => '9e-31',
		'bit_score' => '126',
		'alignment_length' => '401',
		'identity_percentage' => '26.93',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'PTI_03G04810' => array(
		'gene_id' => 'PTI_03G04810',
		'e_value' => '7e-30',
		'bit_score' => '124',
		'alignment_length' => '439',
		'identity_percentage' => '28.70',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P034433'
		)
	),
	'gsu09690' => array(
		'gene_id' => 'gsu09690',
		'e_value' => '2e-29',
		'bit_score' => '122',
		'alignment_length' => '270',
		'identity_percentage' => '30.74',
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'FBgn0034032' => array(
		'gene_id' => 'FBgn0034032',
		'e_value' => '3e-29',
		'bit_score' => '122',
		'alignment_length' => '425',
		'identity_percentage' => '26.35',
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'emh481350' => array(
		'gene_id' => 'emh481350',
		'e_value' => '2e-26',
		'bit_score' => '112',
		'alignment_length' => '238',
		'identity_percentage' => '34.87',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P034433'
		)
	),
	'emh123820' => array(
		'gene_id' => 'emh123820',
		'e_value' => '4e-26',
		'bit_score' => '112',
		'alignment_length' => '316',
		'identity_percentage' => '33.23',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'emh620110' => array(
		'gene_id' => 'emh620110',
		'e_value' => '4e-26',
		'bit_score' => '112',
		'alignment_length' => '316',
		'identity_percentage' => '33.23',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'YDR438W' => array(
		'gene_id' => 'YDR438W',
		'e_value' => '5e-23',
		'bit_score' => '103',
		'alignment_length' => '252',
		'identity_percentage' => '32.94',
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P176571'
		)
	),
	'CM02G00770' => array(
		'gene_id' => 'CM02G00770',
		'e_value' => '1e-22',
		'bit_score' => '102',
		'alignment_length' => '390',
		'identity_percentage' => '28.46',
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'SPBC405.03c' => array(
		'gene_id' => 'SPBC405.03c',
		'e_value' => '5e-18',
		'bit_score' => '88.6',
		'alignment_length' => '242',
		'identity_percentage' => '32.64',
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'emh282220' => array(
		'gene_id' => 'emh282220',
		'e_value' => '1e-16',
		'bit_score' => '85.1',
		'alignment_length' => '267',
		'identity_percentage' => '28.84',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'emh741600' => array(
		'gene_id' => 'emh741600',
		'e_value' => '1e-14',
		'bit_score' => '80.5',
		'alignment_length' => '260',
		'identity_percentage' => '29.23',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P032961',
			'ORTHOFAM' => 'ORTHO03P061653'
		)
	),
	'ATR_00019G00470' => array(
		'gene_id' => 'ATR_00019G00470',
		'e_value' => '1e-10',
		'bit_score' => '64.3',
		'alignment_length' => '165',
		'identity_percentage' => '27.88',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P166230'
		)
	),
	'DDB_G0291462' => array(
		'gene_id' => 'DDB_G0291462',
		'e_value' => '1e-09',
		'bit_score' => '63.5',
		'alignment_length' => '166',
		'identity_percentage' => '30.12',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P024544',
			'ORTHOFAM' => 'ORTHO03P032253'
		)
	),
	'DDB_G0291888' => array(
		'gene_id' => 'DDB_G0291888',
		'e_value' => '5e-09',
		'bit_score' => '62.0',
		'alignment_length' => '193',
		'identity_percentage' => '31.09',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P024544',
			'ORTHOFAM' => 'ORTHO03P032253'
		)
	),
	'phs118910' => array(
		'gene_id' => 'phs118910',
		'e_value' => '1e-07',
		'bit_score' => '57.0',
		'alignment_length' => '259',
		'identity_percentage' => '22.39',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P019068',
			'ORTHOFAM' => 'ORTHO03P022175'
		)
	),
	'ENSG00000183780' => array(
		'gene_id' => 'ENSG00000183780',
		'e_value' => '4e-07',
		'bit_score' => '56.2',
		'alignment_length' => '205',
		'identity_percentage' => '22.93',
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'gf' => array(
			'HOMFAM' => 'HOM03P013224',
			'ORTHOFAM' => 'ORTHO03P065380'
		)
	),
	'ENSMUSG00000057060' => array(
		'gene_id' => 'ENSMUSG00000057060',
		'e_value' => '4e-07',
		'bit_score' => '55.8',
		'alignment_length' => '205',
		'identity_percentage' => '23.90',
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'gf' => array(
			'HOMFAM' => 'HOM03P013224',
			'ORTHOFAM' => 'ORTHO03P065380'
		)
	),
	'AA0019G01090' => array(
		'gene_id' => 'AA0019G01090',
		'e_value' => '6e-07',
		'bit_score' => '55.8',
		'alignment_length' => '219',
		'identity_percentage' => '25.57',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000037',
			'ORTHOFAM' => 'ORTHO03P033815'
		)
	),
	'WBGene00015009' => array(
		'gene_id' => 'WBGene00015009',
		'e_value' => '1e-06',
		'bit_score' => '54.7',
		'alignment_length' => '227',
		'identity_percentage' => '24.23',
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'OM_05G01770' => array(
		'gene_id' => 'OM_05G01770',
		'e_value' => '1e-06',
		'bit_score' => '54.3',
		'alignment_length' => '148',
		'identity_percentage' => '29.05',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001704',
			'ORTHOFAM' => 'ORTHO03P001758'
		)
	),
	'AT3G59340' => array(
		'gene_id' => 'AT3G59340',
		'e_value' => '5e-06',
		'bit_score' => '52.0',
		'alignment_length' => '110',
		'identity_percentage' => '30.00',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001704',
			'ORTHOFAM' => 'ORTHO03P001758'
		)
	)
)
$similarity_hits_species = array(
	'ath' => array(
		(int) 0 => 'AT3G07080',
		(int) 1 => 'AT4G32140',
		(int) 2 => 'AT3G59340'
	),
	'osa' => array(
		(int) 0 => 'OS06G46820',
		(int) 1 => 'OS04G55260'
	),
	'atr' => array(
		(int) 0 => 'ATR_00067G01560',
		(int) 1 => 'ATR_00033G01710',
		(int) 2 => 'ATR_00019G00470'
	),
	'ppa' => array(
		(int) 0 => 'PP00183G00390',
		(int) 1 => 'PP00004G00730',
		(int) 2 => 'PP00057G00740'
	),
	'apr' => array(
		(int) 0 => 'AP00G00650'
	),
	'prcc4223' => array(
		(int) 0 => 'RCC4223.05g01720'
	),
	'acg' => array(
		(int) 0 => 'AC00G01420',
		(int) 1 => 'AC00G01410'
	),
	'pse3' => array(
		(int) 0 => 'PI00G17650'
	),
	'orcc809' => array(
		(int) 0 => 'ORCC809_13G02340'
	),
	'ome' => array(
		(int) 0 => 'OM_08G03760',
		(int) 1 => 'OM_05G01770'
	),
	'nga' => array(
		(int) 0 => 'Naga_100154g12'
	),
	'olu' => array(
		(int) 0 => 'OL13G00700'
	),
	'esi' => array(
		(int) 0 => 'ES0041G00390'
	),
	'phs' => array(
		(int) 0 => 'phs374300',
		(int) 1 => 'phs231730',
		(int) 2 => 'phs118910'
	),
	'mrcc299' => array(
		(int) 0 => 'MRCC299_05G06230'
	),
	'ptri' => array(
		(int) 0 => 'PTI_06G02190',
		(int) 1 => 'PTI_20G02470',
		(int) 2 => 'PTI_03G04810'
	),
	'ota' => array(
		(int) 0 => 'OT_13G00720'
	),
	'fcy' => array(
		(int) 0 => 'FC003G05990'
	),
	'mpu' => array(
		(int) 0 => 'MP16G02340'
	),
	'ddi' => array(
		(int) 0 => 'DDB_G0275793',
		(int) 1 => 'DDB_G0291462',
		(int) 2 => 'DDB_G0291888'
	),
	'vca' => array(
		(int) 0 => 'VC00G04130'
	),
	'sac' => array(
		(int) 0 => 'YML018C',
		(int) 1 => 'YDR438W'
	),
	'hom' => array(
		(int) 0 => 'ENSG00000115084',
		(int) 1 => 'ENSG00000183780'
	),
	'mus' => array(
		(int) 0 => 'ENSMUSG00000026342',
		(int) 1 => 'ENSMUSG00000057060'
	),
	'tps' => array(
		(int) 0 => 'TP03G08070'
	),
	'cvu' => array(
		(int) 0 => 'CV00G78220'
	),
	'cre' => array(
		(int) 0 => 'CR07G09790'
	),
	'ccr' => array(
		(int) 0 => 'ccr88040'
	),
	'gsu' => array(
		(int) 0 => 'gsu09690'
	),
	'drm' => array(
		(int) 0 => 'FBgn0034032'
	),
	'emh' => array(
		(int) 0 => 'emh481350',
		(int) 1 => 'emh123820',
		(int) 2 => 'emh620110',
		(int) 3 => 'emh282220',
		(int) 4 => 'emh741600'
	),
	'cme' => array(
		(int) 0 => 'CM02G00770'
	),
	'scp' => array(
		(int) 0 => 'SPBC405.03c'
	),
	'aan' => array(
		(int) 0 => 'AA0019G01090'
	),
	'cel' => array(
		(int) 0 => 'WBGene00015009'
	)
)
$gene_id = 'AT3G07080'
$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 = 'AT3G07080'
$data_type = 'gene_id'
$allow_async_use = true
$gene_placeholder = 'DDB_G0277233'
$gf_placeholder = 'HOM03P023336'
$title_for_layout = 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
$collapse1 = ''
$collapse2 = 'collapse in'
$similarity_hit = array(
	'gene_id' => 'CNC64A_044G00110',
	'e_value' => '2e-53',
	'bit_score' => '192',
	'alignment_length' => '257',
	'identity_percentage' => '43.58',
	'gf' => array(
		'HOMFAM' => 'HOM03P001538',
		'ORTHOFAM' => 'ORTHO03P002567'
	)
)
$checked = null
$similarity_hit_gene = 'CNC64A_044G00110'
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(
		'AT3G07080' => array(
			'gene_id' => 'AT3G07080',
			'e_value' => '0.0',
			'bit_score' => '874',
			'alignment_length' => '439',
			'identity_percentage' => '100.00',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS06G46820' => array(
			'gene_id' => 'OS06G46820',
			'e_value' => '5e-157',
			'bit_score' => '459',
			'alignment_length' => '432',
			'identity_percentage' => '62.27',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00067G01560' => array(
			'gene_id' => 'ATR_00067G01560',
			'e_value' => '1e-152',
			'bit_score' => '447',
			'alignment_length' => '433',
			'identity_percentage' => '62.36',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00183G00390' => array(
			'gene_id' => 'PP00183G00390',
			'e_value' => '2e-120',
			'bit_score' => '364',
			'alignment_length' => '407',
			'identity_percentage' => '52.09',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G00650' => array(
			'gene_id' => 'AP00G00650',
			'e_value' => '3e-59',
			'bit_score' => '205',
			'alignment_length' => '432',
			'identity_percentage' => '34.72',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.05g01720' => array(
			'gene_id' => 'RCC4223.05g01720',
			'e_value' => '6e-57',
			'bit_score' => '198',
			'alignment_length' => '357',
			'identity_percentage' => '37.25',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AC00G01420' => array(
			'gene_id' => 'AC00G01420',
			'e_value' => '2e-56',
			'bit_score' => '197',
			'alignment_length' => '382',
			'identity_percentage' => '34.82',
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G17650' => array(
			'gene_id' => 'PI00G17650',
			'e_value' => '2e-56',
			'bit_score' => '197',
			'alignment_length' => '368',
			'identity_percentage' => '36.41',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AC00G01410' => array(
			'gene_id' => 'AC00G01410',
			'e_value' => '4e-54',
			'bit_score' => '191',
			'alignment_length' => '382',
			'identity_percentage' => '34.55',
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ORCC809_13G02340' => array(
			'gene_id' => 'ORCC809_13G02340',
			'e_value' => '6e-54',
			'bit_score' => '192',
			'alignment_length' => '427',
			'identity_percentage' => '33.72',
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_044G00110' => array(
			'gene_id' => 'CNC64A_044G00110',
			'e_value' => '2e-53',
			'bit_score' => '192',
			'alignment_length' => '257',
			'identity_percentage' => '43.58',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_08G03760' => array(
			'gene_id' => 'OM_08G03760',
			'e_value' => '6e-51',
			'bit_score' => '184',
			'alignment_length' => '412',
			'identity_percentage' => '32.52',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_100154g12' => array(
			'gene_id' => 'Naga_100154g12',
			'e_value' => '1e-50',
			'bit_score' => '182',
			'alignment_length' => '395',
			'identity_percentage' => '35.44',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OL13G00700' => array(
			'gene_id' => 'OL13G00700',
			'e_value' => '1e-48',
			'bit_score' => '177',
			'alignment_length' => '409',
			'identity_percentage' => '32.52',
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0041G00390' => array(
			'gene_id' => 'ES0041G00390',
			'e_value' => '2e-48',
			'bit_score' => '178',
			'alignment_length' => '402',
			'identity_percentage' => '31.84',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs374300' => array(
			'gene_id' => 'phs374300',
			'e_value' => '3e-47',
			'bit_score' => '173',
			'alignment_length' => '270',
			'identity_percentage' => '41.48',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_05G06230' => array(
			'gene_id' => 'MRCC299_05G06230',
			'e_value' => '5e-46',
			'bit_score' => '169',
			'alignment_length' => '421',
			'identity_percentage' => '32.54',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_06G02190' => array(
			'gene_id' => 'PTI_06G02190',
			'e_value' => '1e-44',
			'bit_score' => '166',
			'alignment_length' => '395',
			'identity_percentage' => '32.91',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OT_13G00720' => array(
			'gene_id' => 'OT_13G00720',
			'e_value' => '7e-44',
			'bit_score' => '164',
			'alignment_length' => '431',
			'identity_percentage' => '31.09',
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC003G05990' => array(
			'gene_id' => 'FC003G05990',
			'e_value' => '8e-42',
			'bit_score' => '157',
			'alignment_length' => '252',
			'identity_percentage' => '38.89',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00004G00730' => array(
			'gene_id' => 'PP00004G00730',
			'e_value' => '1e-40',
			'bit_score' => '154',
			'alignment_length' => '419',
			'identity_percentage' => '29.59',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MP16G02340' => array(
			'gene_id' => 'MP16G02340',
			'e_value' => '6e-40',
			'bit_score' => '153',
			'alignment_length' => '238',
			'identity_percentage' => '41.60',
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0275793' => array(
			'gene_id' => 'DDB_G0275793',
			'e_value' => '2e-39',
			'bit_score' => '153',
			'alignment_length' => '407',
			'identity_percentage' => '27.76',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs231730' => array(
			'gene_id' => 'phs231730',
			'e_value' => '2e-38',
			'bit_score' => '151',
			'alignment_length' => '235',
			'identity_percentage' => '38.30',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G04130' => array(
			'gene_id' => 'VC00G04130',
			'e_value' => '7e-38',
			'bit_score' => '148',
			'alignment_length' => '237',
			'identity_percentage' => '36.29',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00057G00740' => array(
			'gene_id' => 'PP00057G00740',
			'e_value' => '2e-37',
			'bit_score' => '145',
			'alignment_length' => '412',
			'identity_percentage' => '29.37',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'YML018C' => array(
			'gene_id' => 'YML018C',
			'e_value' => '3e-37',
			'bit_score' => '145',
			'alignment_length' => '407',
			'identity_percentage' => '28.99',
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSG00000115084' => array(
			'gene_id' => 'ENSG00000115084',
			'e_value' => '1e-35',
			'bit_score' => '142',
			'alignment_length' => '410',
			'identity_percentage' => '28.54',
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSMUSG00000026342' => array(
			'gene_id' => 'ENSMUSG00000026342',
			'e_value' => '9e-35',
			'bit_score' => '139',
			'alignment_length' => '420',
			'identity_percentage' => '29.52',
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP03G08070' => array(
			'gene_id' => 'TP03G08070',
			'e_value' => '2e-34',
			'bit_score' => '138',
			'alignment_length' => '497',
			'identity_percentage' => '25.75',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G78220' => array(
			'gene_id' => 'CV00G78220',
			'e_value' => '3e-34',
			'bit_score' => '134',
			'alignment_length' => '252',
			'identity_percentage' => '36.51',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00033G01710' => array(
			'gene_id' => 'ATR_00033G01710',
			'e_value' => '2e-33',
			'bit_score' => '134',
			'alignment_length' => '417',
			'identity_percentage' => '27.34',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT4G32140' => array(
			'gene_id' => 'AT4G32140',
			'e_value' => '5e-33',
			'bit_score' => '133',
			'alignment_length' => '420',
			'identity_percentage' => '27.62',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_20G02470' => array(
			'gene_id' => 'PTI_20G02470',
			'e_value' => '1e-32',
			'bit_score' => '132',
			'alignment_length' => '399',
			'identity_percentage' => '29.32',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR07G09790' => array(
			'gene_id' => 'CR07G09790',
			'e_value' => '3e-32',
			'bit_score' => '131',
			'alignment_length' => '231',
			'identity_percentage' => '38.53',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ccr88040' => array(
			'gene_id' => 'ccr88040',
			'e_value' => '2e-31',
			'bit_score' => '129',
			'alignment_length' => '398',
			'identity_percentage' => '29.15',
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS04G55260' => array(
			'gene_id' => 'OS04G55260',
			'e_value' => '9e-31',
			'bit_score' => '126',
			'alignment_length' => '401',
			'identity_percentage' => '26.93',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_03G04810' => array(
			'gene_id' => 'PTI_03G04810',
			'e_value' => '7e-30',
			'bit_score' => '124',
			'alignment_length' => '439',
			'identity_percentage' => '28.70',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'gsu09690' => array(
			'gene_id' => 'gsu09690',
			'e_value' => '2e-29',
			'bit_score' => '122',
			'alignment_length' => '270',
			'identity_percentage' => '30.74',
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FBgn0034032' => array(
			'gene_id' => 'FBgn0034032',
			'e_value' => '3e-29',
			'bit_score' => '122',
			'alignment_length' => '425',
			'identity_percentage' => '26.35',
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh481350' => array(
			'gene_id' => 'emh481350',
			'e_value' => '2e-26',
			'bit_score' => '112',
			'alignment_length' => '238',
			'identity_percentage' => '34.87',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh123820' => array(
			'gene_id' => 'emh123820',
			'e_value' => '4e-26',
			'bit_score' => '112',
			'alignment_length' => '316',
			'identity_percentage' => '33.23',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh620110' => array(
			'gene_id' => 'emh620110',
			'e_value' => '4e-26',
			'bit_score' => '112',
			'alignment_length' => '316',
			'identity_percentage' => '33.23',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'YDR438W' => array(
			'gene_id' => 'YDR438W',
			'e_value' => '5e-23',
			'bit_score' => '103',
			'alignment_length' => '252',
			'identity_percentage' => '32.94',
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CM02G00770' => array(
			'gene_id' => 'CM02G00770',
			'e_value' => '1e-22',
			'bit_score' => '102',
			'alignment_length' => '390',
			'identity_percentage' => '28.46',
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'SPBC405.03c' => array(
			'gene_id' => 'SPBC405.03c',
			'e_value' => '5e-18',
			'bit_score' => '88.6',
			'alignment_length' => '242',
			'identity_percentage' => '32.64',
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh282220' => array(
			'gene_id' => 'emh282220',
			'e_value' => '1e-16',
			'bit_score' => '85.1',
			'alignment_length' => '267',
			'identity_percentage' => '28.84',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh741600' => array(
			'gene_id' => 'emh741600',
			'e_value' => '1e-14',
			'bit_score' => '80.5',
			'alignment_length' => '260',
			'identity_percentage' => '29.23',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00019G00470' => array(
			'gene_id' => 'ATR_00019G00470',
			'e_value' => '1e-10',
			'bit_score' => '64.3',
			'alignment_length' => '165',
			'identity_percentage' => '27.88',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0291462' => array(
			'gene_id' => 'DDB_G0291462',
			'e_value' => '1e-09',
			'bit_score' => '63.5',
			'alignment_length' => '166',
			'identity_percentage' => '30.12',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'DDB_G0291888' => array(
			'gene_id' => 'DDB_G0291888',
			'e_value' => '5e-09',
			'bit_score' => '62.0',
			'alignment_length' => '193',
			'identity_percentage' => '31.09',
			'species' => 'ddi',
			'common_name' => 'Dictyostelium discoideum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs118910' => array(
			'gene_id' => 'phs118910',
			'e_value' => '1e-07',
			'bit_score' => '57.0',
			'alignment_length' => '259',
			'identity_percentage' => '22.39',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSG00000183780' => array(
			'gene_id' => 'ENSG00000183780',
			'e_value' => '4e-07',
			'bit_score' => '56.2',
			'alignment_length' => '205',
			'identity_percentage' => '22.93',
			'species' => 'hom',
			'common_name' => 'Homo sapiens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ENSMUSG00000057060' => array(
			'gene_id' => 'ENSMUSG00000057060',
			'e_value' => '4e-07',
			'bit_score' => '55.8',
			'alignment_length' => '205',
			'identity_percentage' => '23.90',
			'species' => 'mus',
			'common_name' => 'Mus musculus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0019G01090' => array(
			'gene_id' => 'AA0019G01090',
			'e_value' => '6e-07',
			'bit_score' => '55.8',
			'alignment_length' => '219',
			'identity_percentage' => '25.57',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'WBGene00015009' => array(
			'gene_id' => 'WBGene00015009',
			'e_value' => '1e-06',
			'bit_score' => '54.7',
			'alignment_length' => '227',
			'identity_percentage' => '24.23',
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_05G01770' => array(
			'gene_id' => 'OM_05G01770',
			'e_value' => '1e-06',
			'bit_score' => '54.3',
			'alignment_length' => '148',
			'identity_percentage' => '29.05',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT3G59340' => array(
			'gene_id' => 'AT3G59340',
			'e_value' => '5e-06',
			'bit_score' => '52.0',
			'alignment_length' => '110',
			'identity_percentage' => '30.00',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		)
	),
	'similarity_hits_species' => array(
		'ath' => array(
			(int) 0 => 'AT3G07080',
			(int) 1 => 'AT4G32140',
			(int) 2 => 'AT3G59340'
		),
		'osa' => array(
			(int) 0 => 'OS06G46820',
			(int) 1 => 'OS04G55260'
		),
		'atr' => array(
			(int) 0 => 'ATR_00067G01560',
			(int) 1 => 'ATR_00033G01710',
			(int) 2 => 'ATR_00019G00470'
		),
		'ppa' => array(
			(int) 0 => 'PP00183G00390',
			(int) 1 => 'PP00004G00730',
			(int) 2 => 'PP00057G00740'
		),
		'apr' => array(
			(int) 0 => 'AP00G00650'
		),
		'prcc4223' => array(
			(int) 0 => 'RCC4223.05g01720'
		),
		'acg' => array(
			(int) 0 => 'AC00G01420',
			(int) 1 => 'AC00G01410'
		),
		'pse3' => array(
			(int) 0 => 'PI00G17650'
		),
		'orcc809' => array(
			(int) 0 => 'ORCC809_13G02340'
		),
		'ome' => array(
			(int) 0 => 'OM_08G03760',
			(int) 1 => 'OM_05G01770'
		),
		'nga' => array(
			(int) 0 => 'Naga_100154g12'
		),
		'olu' => array(
			(int) 0 => 'OL13G00700'
		),
		'esi' => array(
			(int) 0 => 'ES0041G00390'
		),
		'phs' => array(
			(int) 0 => 'phs374300',
			(int) 1 => 'phs231730',
			(int) 2 => 'phs118910'
		),
		'mrcc299' => array(
			(int) 0 => 'MRCC299_05G06230'
		),
		'ptri' => array(
			(int) 0 => 'PTI_06G02190',
			(int) 1 => 'PTI_20G02470',
			(int) 2 => 'PTI_03G04810'
		),
		'ota' => array(
			(int) 0 => 'OT_13G00720'
		),
		'fcy' => array(
			(int) 0 => 'FC003G05990'
		),
		'mpu' => array(
			(int) 0 => 'MP16G02340'
		),
		'ddi' => array(
			(int) 0 => 'DDB_G0275793',
			(int) 1 => 'DDB_G0291462',
			(int) 2 => 'DDB_G0291888'
		),
		'vca' => array(
			(int) 0 => 'VC00G04130'
		),
		'sac' => array(
			(int) 0 => 'YML018C',
			(int) 1 => 'YDR438W'
		),
		'hom' => array(
			(int) 0 => 'ENSG00000115084',
			(int) 1 => 'ENSG00000183780'
		),
		'mus' => array(
			(int) 0 => 'ENSMUSG00000026342',
			(int) 1 => 'ENSMUSG00000057060'
		),
		'tps' => array(
			(int) 0 => 'TP03G08070'
		),
		'cvu' => array(
			(int) 0 => 'CV00G78220'
		),
		'cre' => array(
			(int) 0 => 'CR07G09790'
		),
		'ccr' => array(
			(int) 0 => 'ccr88040'
		),
		'gsu' => array(
			(int) 0 => 'gsu09690'
		),
		'drm' => array(
			(int) 0 => 'FBgn0034032'
		),
		'emh' => array(
			(int) 0 => 'emh481350',
			(int) 1 => 'emh123820',
			(int) 2 => 'emh620110',
			(int) 3 => 'emh282220',
			(int) 4 => 'emh741600'
		),
		'cme' => array(
			(int) 0 => 'CM02G00770'
		),
		'scp' => array(
			(int) 0 => 'SPBC405.03c'
		),
		'aan' => array(
			(int) 0 => 'AA0019G01090'
		),
		'cel' => array(
			(int) 0 => 'WBGene00015009'
		)
	),
	'gene_id' => 'AT3G07080',
	'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' => 'AT3G07080',
	'data_type' => 'gene_id',
	'allow_async_use' => true,
	'gene_placeholder' => 'DDB_G0277233',
	'gf_placeholder' => 'HOM03P023336',
	'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(
	'AT3G07080' => array(
		'gene_id' => 'AT3G07080',
		'e_value' => '0.0',
		'bit_score' => '874',
		'alignment_length' => '439',
		'identity_percentage' => '100.00',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OS06G46820' => array(
		'gene_id' => 'OS06G46820',
		'e_value' => '5e-157',
		'bit_score' => '459',
		'alignment_length' => '432',
		'identity_percentage' => '62.27',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ATR_00067G01560' => array(
		'gene_id' => 'ATR_00067G01560',
		'e_value' => '1e-152',
		'bit_score' => '447',
		'alignment_length' => '433',
		'identity_percentage' => '62.36',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PP00183G00390' => array(
		'gene_id' => 'PP00183G00390',
		'e_value' => '2e-120',
		'bit_score' => '364',
		'alignment_length' => '407',
		'identity_percentage' => '52.09',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'AP00G00650' => array(
		'gene_id' => 'AP00G00650',
		'e_value' => '3e-59',
		'bit_score' => '205',
		'alignment_length' => '432',
		'identity_percentage' => '34.72',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'RCC4223.05g01720' => array(
		'gene_id' => 'RCC4223.05g01720',
		'e_value' => '6e-57',
		'bit_score' => '198',
		'alignment_length' => '357',
		'identity_percentage' => '37.25',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'AC00G01420' => array(
		'gene_id' => 'AC00G01420',
		'e_value' => '2e-56',
		'bit_score' => '197',
		'alignment_length' => '382',
		'identity_percentage' => '34.82',
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PI00G17650' => array(
		'gene_id' => 'PI00G17650',
		'e_value' => '2e-56',
		'bit_score' => '197',
		'alignment_length' => '368',
		'identity_percentage' => '36.41',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'AC00G01410' => array(
		'gene_id' => 'AC00G01410',
		'e_value' => '4e-54',
		'bit_score' => '191',
		'alignment_length' => '382',
		'identity_percentage' => '34.55',
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ORCC809_13G02340' => array(
		'gene_id' => 'ORCC809_13G02340',
		'e_value' => '6e-54',
		'bit_score' => '192',
		'alignment_length' => '427',
		'identity_percentage' => '33.72',
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'CNC64A_044G00110' => array(
		'gene_id' => 'CNC64A_044G00110',
		'e_value' => '2e-53',
		'bit_score' => '192',
		'alignment_length' => '257',
		'identity_percentage' => '43.58',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OM_08G03760' => array(
		'gene_id' => 'OM_08G03760',
		'e_value' => '6e-51',
		'bit_score' => '184',
		'alignment_length' => '412',
		'identity_percentage' => '32.52',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'Naga_100154g12' => array(
		'gene_id' => 'Naga_100154g12',
		'e_value' => '1e-50',
		'bit_score' => '182',
		'alignment_length' => '395',
		'identity_percentage' => '35.44',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OL13G00700' => array(
		'gene_id' => 'OL13G00700',
		'e_value' => '1e-48',
		'bit_score' => '177',
		'alignment_length' => '409',
		'identity_percentage' => '32.52',
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ES0041G00390' => array(
		'gene_id' => 'ES0041G00390',
		'e_value' => '2e-48',
		'bit_score' => '178',
		'alignment_length' => '402',
		'identity_percentage' => '31.84',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'phs374300' => array(
		'gene_id' => 'phs374300',
		'e_value' => '3e-47',
		'bit_score' => '173',
		'alignment_length' => '270',
		'identity_percentage' => '41.48',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'MRCC299_05G06230' => array(
		'gene_id' => 'MRCC299_05G06230',
		'e_value' => '5e-46',
		'bit_score' => '169',
		'alignment_length' => '421',
		'identity_percentage' => '32.54',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PTI_06G02190' => array(
		'gene_id' => 'PTI_06G02190',
		'e_value' => '1e-44',
		'bit_score' => '166',
		'alignment_length' => '395',
		'identity_percentage' => '32.91',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'OT_13G00720' => array(
		'gene_id' => 'OT_13G00720',
		'e_value' => '7e-44',
		'bit_score' => '164',
		'alignment_length' => '431',
		'identity_percentage' => '31.09',
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'FC003G05990' => array(
		'gene_id' => 'FC003G05990',
		'e_value' => '8e-42',
		'bit_score' => '157',
		'alignment_length' => '252',
		'identity_percentage' => '38.89',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PP00004G00730' => array(
		'gene_id' => 'PP00004G00730',
		'e_value' => '1e-40',
		'bit_score' => '154',
		'alignment_length' => '419',
		'identity_percentage' => '29.59',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'MP16G02340' => array(
		'gene_id' => 'MP16G02340',
		'e_value' => '6e-40',
		'bit_score' => '153',
		'alignment_length' => '238',
		'identity_percentage' => '41.60',
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'DDB_G0275793' => array(
		'gene_id' => 'DDB_G0275793',
		'e_value' => '2e-39',
		'bit_score' => '153',
		'alignment_length' => '407',
		'identity_percentage' => '27.76',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'phs231730' => array(
		'gene_id' => 'phs231730',
		'e_value' => '2e-38',
		'bit_score' => '151',
		'alignment_length' => '235',
		'identity_percentage' => '38.30',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P002873',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'VC00G04130' => array(
		'gene_id' => 'VC00G04130',
		'e_value' => '7e-38',
		'bit_score' => '148',
		'alignment_length' => '237',
		'identity_percentage' => '36.29',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'PP00057G00740' => array(
		'gene_id' => 'PP00057G00740',
		'e_value' => '2e-37',
		'bit_score' => '145',
		'alignment_length' => '412',
		'identity_percentage' => '29.37',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'YML018C' => array(
		'gene_id' => 'YML018C',
		'e_value' => '3e-37',
		'bit_score' => '145',
		'alignment_length' => '407',
		'identity_percentage' => '28.99',
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'ENSG00000115084' => array(
		'gene_id' => 'ENSG00000115084',
		'e_value' => '1e-35',
		'bit_score' => '142',
		'alignment_length' => '410',
		'identity_percentage' => '28.54',
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'ENSMUSG00000026342' => array(
		'gene_id' => 'ENSMUSG00000026342',
		'e_value' => '9e-35',
		'bit_score' => '139',
		'alignment_length' => '420',
		'identity_percentage' => '29.52',
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'TP03G08070' => array(
		'gene_id' => 'TP03G08070',
		'e_value' => '2e-34',
		'bit_score' => '138',
		'alignment_length' => '497',
		'identity_percentage' => '25.75',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'CV00G78220' => array(
		'gene_id' => 'CV00G78220',
		'e_value' => '3e-34',
		'bit_score' => '134',
		'alignment_length' => '252',
		'identity_percentage' => '36.51',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ATR_00033G01710' => array(
		'gene_id' => 'ATR_00033G01710',
		'e_value' => '2e-33',
		'bit_score' => '134',
		'alignment_length' => '417',
		'identity_percentage' => '27.34',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'AT4G32140' => array(
		'gene_id' => 'AT4G32140',
		'e_value' => '5e-33',
		'bit_score' => '133',
		'alignment_length' => '420',
		'identity_percentage' => '27.62',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'PTI_20G02470' => array(
		'gene_id' => 'PTI_20G02470',
		'e_value' => '1e-32',
		'bit_score' => '132',
		'alignment_length' => '399',
		'identity_percentage' => '29.32',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P034433'
		)
	),
	'CR07G09790' => array(
		'gene_id' => 'CR07G09790',
		'e_value' => '3e-32',
		'bit_score' => '131',
		'alignment_length' => '231',
		'identity_percentage' => '38.53',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'ccr88040' => array(
		'gene_id' => 'ccr88040',
		'e_value' => '2e-31',
		'bit_score' => '129',
		'alignment_length' => '398',
		'identity_percentage' => '29.15',
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'OS04G55260' => array(
		'gene_id' => 'OS04G55260',
		'e_value' => '9e-31',
		'bit_score' => '126',
		'alignment_length' => '401',
		'identity_percentage' => '26.93',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'PTI_03G04810' => array(
		'gene_id' => 'PTI_03G04810',
		'e_value' => '7e-30',
		'bit_score' => '124',
		'alignment_length' => '439',
		'identity_percentage' => '28.70',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P034433'
		)
	),
	'gsu09690' => array(
		'gene_id' => 'gsu09690',
		'e_value' => '2e-29',
		'bit_score' => '122',
		'alignment_length' => '270',
		'identity_percentage' => '30.74',
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'FBgn0034032' => array(
		'gene_id' => 'FBgn0034032',
		'e_value' => '3e-29',
		'bit_score' => '122',
		'alignment_length' => '425',
		'identity_percentage' => '26.35',
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'emh481350' => array(
		'gene_id' => 'emh481350',
		'e_value' => '2e-26',
		'bit_score' => '112',
		'alignment_length' => '238',
		'identity_percentage' => '34.87',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P034433'
		)
	),
	'emh123820' => array(
		'gene_id' => 'emh123820',
		'e_value' => '4e-26',
		'bit_score' => '112',
		'alignment_length' => '316',
		'identity_percentage' => '33.23',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'emh620110' => array(
		'gene_id' => 'emh620110',
		'e_value' => '4e-26',
		'bit_score' => '112',
		'alignment_length' => '316',
		'identity_percentage' => '33.23',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P002567'
		)
	),
	'YDR438W' => array(
		'gene_id' => 'YDR438W',
		'e_value' => '5e-23',
		'bit_score' => '103',
		'alignment_length' => '252',
		'identity_percentage' => '32.94',
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P176571'
		)
	),
	'CM02G00770' => array(
		'gene_id' => 'CM02G00770',
		'e_value' => '1e-22',
		'bit_score' => '102',
		'alignment_length' => '390',
		'identity_percentage' => '28.46',
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'SPBC405.03c' => array(
		'gene_id' => 'SPBC405.03c',
		'e_value' => '5e-18',
		'bit_score' => '88.6',
		'alignment_length' => '242',
		'identity_percentage' => '32.64',
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'emh282220' => array(
		'gene_id' => 'emh282220',
		'e_value' => '1e-16',
		'bit_score' => '85.1',
		'alignment_length' => '267',
		'identity_percentage' => '28.84',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'emh741600' => array(
		'gene_id' => 'emh741600',
		'e_value' => '1e-14',
		'bit_score' => '80.5',
		'alignment_length' => '260',
		'identity_percentage' => '29.23',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P032961',
			'ORTHOFAM' => 'ORTHO03P061653'
		)
	),
	'ATR_00019G00470' => array(
		'gene_id' => 'ATR_00019G00470',
		'e_value' => '1e-10',
		'bit_score' => '64.3',
		'alignment_length' => '165',
		'identity_percentage' => '27.88',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P166230'
		)
	),
	'DDB_G0291462' => array(
		'gene_id' => 'DDB_G0291462',
		'e_value' => '1e-09',
		'bit_score' => '63.5',
		'alignment_length' => '166',
		'identity_percentage' => '30.12',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P024544',
			'ORTHOFAM' => 'ORTHO03P032253'
		)
	),
	'DDB_G0291888' => array(
		'gene_id' => 'DDB_G0291888',
		'e_value' => '5e-09',
		'bit_score' => '62.0',
		'alignment_length' => '193',
		'identity_percentage' => '31.09',
		'species' => 'ddi',
		'common_name' => 'Dictyostelium discoideum',
		'gf' => array(
			'HOMFAM' => 'HOM03P024544',
			'ORTHOFAM' => 'ORTHO03P032253'
		)
	),
	'phs118910' => array(
		'gene_id' => 'phs118910',
		'e_value' => '1e-07',
		'bit_score' => '57.0',
		'alignment_length' => '259',
		'identity_percentage' => '22.39',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P019068',
			'ORTHOFAM' => 'ORTHO03P022175'
		)
	),
	'ENSG00000183780' => array(
		'gene_id' => 'ENSG00000183780',
		'e_value' => '4e-07',
		'bit_score' => '56.2',
		'alignment_length' => '205',
		'identity_percentage' => '22.93',
		'species' => 'hom',
		'common_name' => 'Homo sapiens',
		'gf' => array(
			'HOMFAM' => 'HOM03P013224',
			'ORTHOFAM' => 'ORTHO03P065380'
		)
	),
	'ENSMUSG00000057060' => array(
		'gene_id' => 'ENSMUSG00000057060',
		'e_value' => '4e-07',
		'bit_score' => '55.8',
		'alignment_length' => '205',
		'identity_percentage' => '23.90',
		'species' => 'mus',
		'common_name' => 'Mus musculus',
		'gf' => array(
			'HOMFAM' => 'HOM03P013224',
			'ORTHOFAM' => 'ORTHO03P065380'
		)
	),
	'AA0019G01090' => array(
		'gene_id' => 'AA0019G01090',
		'e_value' => '6e-07',
		'bit_score' => '55.8',
		'alignment_length' => '219',
		'identity_percentage' => '25.57',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000037',
			'ORTHOFAM' => 'ORTHO03P033815'
		)
	),
	'WBGene00015009' => array(
		'gene_id' => 'WBGene00015009',
		'e_value' => '1e-06',
		'bit_score' => '54.7',
		'alignment_length' => '227',
		'identity_percentage' => '24.23',
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'gf' => array(
			'HOMFAM' => 'HOM03P001538',
			'ORTHOFAM' => 'ORTHO03P005333'
		)
	),
	'OM_05G01770' => array(
		'gene_id' => 'OM_05G01770',
		'e_value' => '1e-06',
		'bit_score' => '54.3',
		'alignment_length' => '148',
		'identity_percentage' => '29.05',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P001704',
			'ORTHOFAM' => 'ORTHO03P001758'
		)
	),
	'AT3G59340' => array(
		'gene_id' => 'AT3G59340',
		'e_value' => '5e-06',
		'bit_score' => '52.0',
		'alignment_length' => '110',
		'identity_percentage' => '30.00',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P001704',
			'ORTHOFAM' => 'ORTHO03P001758'
		)
	)
)
$similarity_hits_species = array(
	'ath' => array(
		(int) 0 => 'AT3G07080',
		(int) 1 => 'AT4G32140',
		(int) 2 => 'AT3G59340'
	),
	'osa' => array(
		(int) 0 => 'OS06G46820',
		(int) 1 => 'OS04G55260'
	),
	'atr' => array(
		(int) 0 => 'ATR_00067G01560',
		(int) 1 => 'ATR_00033G01710',
		(int) 2 => 'ATR_00019G00470'
	),
	'ppa' => array(
		(int) 0 => 'PP00183G00390',
		(int) 1 => 'PP00004G00730',
		(int) 2 => 'PP00057G00740'
	),
	'apr' => array(
		(int) 0 => 'AP00G00650'
	),
	'prcc4223' => array(
		(int) 0 => 'RCC4223.05g01720'
	),
	'acg' => array(
		(int) 0 => 'AC00G01420',
		(int) 1 => 'AC00G01410'
	),
	'pse3' => array(
		(int) 0 => 'PI00G17650'
	),
	'orcc809' => array(
		(int) 0 => 'ORCC809_13G02340'
	),
	'ome' => array(
		(int) 0 => 'OM_08G03760',
		(int) 1 => 'OM_05G01770'
	),
	'nga' => array(
		(int) 0 => 'Naga_100154g12'
	),
	'olu' => array(
		(int) 0 => 'OL13G00700'
	),
	'esi' => array(
		(int) 0 => 'ES0041G00390'
	),
	'phs' => array(
		(int) 0 => 'phs374300',
		(int) 1 => 'phs231730',
		(int) 2 => 'phs118910'
	),
	'mrcc299' => array(
		(int) 0 => 'MRCC299_05G06230'
	),
	'ptri' => array(
		(int) 0 => 'PTI_06G02190',
		(int) 1 => 'PTI_20G02470',
		(int) 2 => 'PTI_03G04810'
	),
	'ota' => array(
		(int) 0 => 'OT_13G00720'
	),
	'fcy' => array(
		(int) 0 => 'FC003G05990'
	),
	'mpu' => array(
		(int) 0 => 'MP16G02340'
	),
	'ddi' => array(
		(int) 0 => 'DDB_G0275793',
		(int) 1 => 'DDB_G0291462',
		(int) 2 => 'DDB_G0291888'
	),
	'vca' => array(
		(int) 0 => 'VC00G04130'
	),
	'sac' => array(
		(int) 0 => 'YML018C',
		(int) 1 => 'YDR438W'
	),
	'hom' => array(
		(int) 0 => 'ENSG00000115084',
		(int) 1 => 'ENSG00000183780'
	),
	'mus' => array(
		(int) 0 => 'ENSMUSG00000026342',
		(int) 1 => 'ENSMUSG00000057060'
	),
	'tps' => array(
		(int) 0 => 'TP03G08070'
	),
	'cvu' => array(
		(int) 0 => 'CV00G78220'
	),
	'cre' => array(
		(int) 0 => 'CR07G09790'
	),
	'ccr' => array(
		(int) 0 => 'ccr88040'
	),
	'gsu' => array(
		(int) 0 => 'gsu09690'
	),
	'drm' => array(
		(int) 0 => 'FBgn0034032'
	),
	'emh' => array(
		(int) 0 => 'emh481350',
		(int) 1 => 'emh123820',
		(int) 2 => 'emh620110',
		(int) 3 => 'emh282220',
		(int) 4 => 'emh741600'
	),
	'cme' => array(
		(int) 0 => 'CM02G00770'
	),
	'scp' => array(
		(int) 0 => 'SPBC405.03c'
	),
	'aan' => array(
		(int) 0 => 'AA0019G01090'
	),
	'cel' => array(
		(int) 0 => 'WBGene00015009'
	)
)
$gene_id = 'AT3G07080'
$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 = 'AT3G07080'
$data_type = 'gene_id'
$allow_async_use = true
$gene_placeholder = 'DDB_G0277233'
$gf_placeholder = 'HOM03P023336'
$title_for_layout = 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
$collapse1 = ''
$collapse2 = 'collapse in'
$similarity_hit = array(
	'gene_id' => 'CNC64A_044G00110',
	'e_value' => '2e-53',
	'bit_score' => '192',
	'alignment_length' => '257',
	'identity_percentage' => '43.58',
	'gf' => array(
		'HOMFAM' => 'HOM03P001538',
		'ORTHOFAM' => 'ORTHO03P002567'
	)
)
$checked = null
$similarity_hit_gene = 'CNC64A_044G00110'
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
AT3G07080	Arabidopsis thaliana	0.0	874	439	100.00
OS06G46820	Oryza sativa	5e-157	459	432	62.27
ATR_00067G01560	Amborella trichopoda	1e-152	447	433	62.36
PP00183G00390	Physcomitrella patens	2e-120	364	407	52.09
AP00G00650	Auxenochlorella protothecoides	3e-59	205	432	34.72
RCC4223.05g01720	Picochlorum_RCC4223	6e-57	198	357	37.25
AC00G01420	Asterochloris sp. Cgr-DA1pho v2.0	2e-56	197	382	34.82
PI00G17650	Picochlorum sp. SENEW3 (SE3)	2e-56	197	368	36.41
AC00G01410	Asterochloris sp. Cgr-DA1pho v2.0	4e-54	191	382	34.55
ORCC809_13G02340	Ostreococcus sp RCC809	6e-54	192	427	33.72
CNC64A_044G00110		2e-53	192	257	43.58
OM_08G03760	Ostreococcus mediterraneus	6e-51	184	412	32.52
Naga_100154g12	Nannochloropsis gaditana	1e-50	182	395	35.44
OL13G00700	Ostreococcus lucimarinus	1e-48	177	409	32.52
ES0041G00390	Ectocarpus siliculosus	2e-48	178	402	31.84
phs374300	Phytophtora sojae	3e-47	173	270	41.48
MRCC299_05G06230	Micromonas sp RCC299	5e-46	169	421	32.54
PTI_06G02190	Phaeodactylum tricornutum	1e-44	166	395	32.91
OT_13G00720	Ostreococcus tauri	7e-44	164	431	31.09
FC003G05990	Fragilariopsis cylindrus	8e-42	157	252	38.89
PP00004G00730	Physcomitrella patens	1e-40	154	419	29.59
MP16G02340	Micromonas pusilla strain CCMP1545	6e-40	153	238	41.60
DDB_G0275793	Dictyostelium discoideum	2e-39	153	407	27.76
phs231730	Phytophtora sojae	2e-38	151	235	38.30
VC00G04130	Volvox carteri	7e-38	148	237	36.29
PP00057G00740	Physcomitrella patens	2e-37	145	412	29.37
YML018C	Saccharomyces cerevisiae strain S288C	3e-37	145	407	28.99
ENSG00000115084	Homo sapiens	1e-35	142	410	28.54
ENSMUSG00000026342	Mus musculus	9e-35	139	420	29.52
TP03G08070	Thalassiosira pseudonana	2e-34	138	497	25.75
CV00G78220	Coccomyxa subellipsoidea C-169	3e-34	134	252	36.51
ATR_00033G01710	Amborella trichopoda	2e-33	134	417	27.34
AT4G32140	Arabidopsis thaliana	5e-33	133	420	27.62
PTI_20G02470	Phaeodactylum tricornutum	1e-32	132	399	29.32
CR07G09790	Chlamydomonas reinhardtii	3e-32	131	231	38.53
ccr88040	Chondrus crispus	2e-31	129	398	29.15
OS04G55260	Oryza sativa	9e-31	126	401	26.93
PTI_03G04810	Phaeodactylum tricornutum	7e-30	124	439	28.70
gsu09690	Galdieria sulphuraria	2e-29	122	270	30.74
FBgn0034032	Drosophila melanogaster	3e-29	122	425	26.35
emh481350	Emiliania huxleyi	2e-26	112	238	34.87
emh123820	Emiliania huxleyi	4e-26	112	316	33.23
emh620110	Emiliania huxleyi	4e-26	112	316	33.23
YDR438W	Saccharomyces cerevisiae strain S288C	5e-23	103	252	32.94
CM02G00770	Cyanidioschyzon merolae	1e-22	102	390	28.46
SPBC405.03c	Schizosaccharomyces pombe	5e-18	88.6	242	32.64
emh282220	Emiliania huxleyi	1e-16	85.1	267	28.84
emh741600	Emiliania huxleyi	1e-14	80.5	260	29.23
ATR_00019G00470	Amborella trichopoda	1e-10	64.3	165	27.88
DDB_G0291462	Dictyostelium discoideum	1e-09	63.5	166	30.12
DDB_G0291888	Dictyostelium discoideum	5e-09	62.0	193	31.09
phs118910	Phytophtora sojae	1e-07	57.0	259	22.39
ENSG00000183780	Homo sapiens	4e-07	56.2	205	22.93
ENSMUSG00000057060	Mus musculus	4e-07	55.8	205	23.90
AA0019G01090	Aureococcus anophagefferens	6e-07	55.8	219	25.57
WBGene00015009	Caenorhabditis elegans	1e-06	54.7	227	24.23
OM_05G01770	Ostreococcus mediterraneus	1e-06	54.3	148	29.05
AT3G59340	Arabidopsis thaliana	5e-06	52.0	110	30.00

External Sequences (optional)

External Sequences Type

Program Settings

MSA algorithm
Tree construction algorithm
Edit MSA alignment