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(
		'VC00G100720' => array(
			'gene_id' => 'VC00G100720',
			'e_value' => '0.0',
			'bit_score' => '3199',
			'alignment_length' => '1550',
			'identity_percentage' => '100.00',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR12G06740' => array(
			'gene_id' => 'CR12G06740',
			'e_value' => '0.0',
			'bit_score' => '2893',
			'alignment_length' => '1553',
			'identity_percentage' => '88.67',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AC00G65230' => array(
			'gene_id' => 'AC00G65230',
			'e_value' => '0.0',
			'bit_score' => '2301',
			'alignment_length' => '1525',
			'identity_percentage' => '71.21',
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G44190' => array(
			'gene_id' => 'CV00G44190',
			'e_value' => '0.0',
			'bit_score' => '2267',
			'alignment_length' => '1494',
			'identity_percentage' => '72.29',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.11g02190' => array(
			'gene_id' => 'RCC4223.11g02190',
			'e_value' => '0.0',
			'bit_score' => '2265',
			'alignment_length' => '1536',
			'identity_percentage' => '70.38',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G40630' => array(
			'gene_id' => 'PI00G40630',
			'e_value' => '0.0',
			'bit_score' => '2263',
			'alignment_length' => '1540',
			'identity_percentage' => '70.39',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00212G00220' => array(
			'gene_id' => 'PP00212G00220',
			'e_value' => '0.0',
			'bit_score' => '2050',
			'alignment_length' => '1541',
			'identity_percentage' => '64.44',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS07G46460' => array(
			'gene_id' => 'OS07G46460',
			'e_value' => '0.0',
			'bit_score' => '2019',
			'alignment_length' => '1528',
			'identity_percentage' => '63.48',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT5G04140' => array(
			'gene_id' => 'AT5G04140',
			'e_value' => '0.0',
			'bit_score' => '2011',
			'alignment_length' => '1530',
			'identity_percentage' => '63.07',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00063G00700' => array(
			'gene_id' => 'ATR_00063G00700',
			'e_value' => '0.0',
			'bit_score' => '2003',
			'alignment_length' => '1545',
			'identity_percentage' => '61.94',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT2G41220' => array(
			'gene_id' => 'AT2G41220',
			'e_value' => '0.0',
			'bit_score' => '2000',
			'alignment_length' => '1542',
			'identity_percentage' => '61.93',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_13G01370' => array(
			'gene_id' => 'OM_13G01370',
			'e_value' => '0.0',
			'bit_score' => '1999',
			'alignment_length' => '1540',
			'identity_percentage' => '63.38',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ORCC809_20G02050' => array(
			'gene_id' => 'ORCC809_20G02050',
			'e_value' => '0.0',
			'bit_score' => '1997',
			'alignment_length' => '1529',
			'identity_percentage' => '64.22',
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OT_14G02150' => array(
			'gene_id' => 'OT_14G02150',
			'e_value' => '0.0',
			'bit_score' => '1996',
			'alignment_length' => '1538',
			'identity_percentage' => '63.85',
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00042G01290' => array(
			'gene_id' => 'PP00042G01290',
			'e_value' => '0.0',
			'bit_score' => '1994',
			'alignment_length' => '1563',
			'identity_percentage' => '62.44',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OL20G02060' => array(
			'gene_id' => 'OL20G02060',
			'e_value' => '0.0',
			'bit_score' => '1991',
			'alignment_length' => '1529',
			'identity_percentage' => '63.90',
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MP15G01340' => array(
			'gene_id' => 'MP15G01340',
			'e_value' => '0.0',
			'bit_score' => '1952',
			'alignment_length' => '1555',
			'identity_percentage' => '62.77',
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'BPRRCC1105_12G01040' => array(
			'gene_id' => 'BPRRCC1105_12G01040',
			'e_value' => '0.0',
			'bit_score' => '1943',
			'alignment_length' => '1544',
			'identity_percentage' => '61.59',
			'species' => 'bprrcc1105',
			'common_name' => 'Bathycoccus prasinos',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_13G02940' => array(
			'gene_id' => 'MRCC299_13G02940',
			'e_value' => '0.0',
			'bit_score' => '1910',
			'alignment_length' => '1558',
			'identity_percentage' => '62.26',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ccr04000' => array(
			'gene_id' => 'ccr04000',
			'e_value' => '0.0',
			'bit_score' => '1701',
			'alignment_length' => '1521',
			'identity_percentage' => '55.10',
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'gsu53380' => array(
			'gene_id' => 'gsu53380',
			'e_value' => '0.0',
			'bit_score' => '1648',
			'alignment_length' => '1496',
			'identity_percentage' => '55.08',
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_100005g23' => array(
			'gene_id' => 'Naga_100005g23',
			'e_value' => '0.0',
			'bit_score' => '1632',
			'alignment_length' => '1555',
			'identity_percentage' => '54.41',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP17G00640' => array(
			'gene_id' => 'TP17G00640',
			'e_value' => '0.0',
			'bit_score' => '1630',
			'alignment_length' => '1562',
			'identity_percentage' => '53.52',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_01G06310' => array(
			'gene_id' => 'PTI_01G06310',
			'e_value' => '0.0',
			'bit_score' => '1588',
			'alignment_length' => '1604',
			'identity_percentage' => '52.12',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0000G02150' => array(
			'gene_id' => 'ES0000G02150',
			'e_value' => '0.0',
			'bit_score' => '1575',
			'alignment_length' => '1570',
			'identity_percentage' => '52.68',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC006G06510' => array(
			'gene_id' => 'FC006G06510',
			'e_value' => '0.0',
			'bit_score' => '1573',
			'alignment_length' => '1614',
			'identity_percentage' => '52.42',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CMCG00600' => array(
			'gene_id' => 'CMCG00600',
			'e_value' => '0.0',
			'bit_score' => '1563',
			'alignment_length' => '1527',
			'identity_percentage' => '53.57',
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G41850' => array(
			'gene_id' => 'AP00G41850',
			'e_value' => '0.0',
			'bit_score' => '1239',
			'alignment_length' => '853',
			'identity_percentage' => '71.40',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'SPAPB1E7.07' => array(
			'gene_id' => 'SPAPB1E7.07',
			'e_value' => '0.0',
			'bit_score' => '1210',
			'alignment_length' => '1554',
			'identity_percentage' => '43.82',
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0006G04570' => array(
			'gene_id' => 'AA0006G04570',
			'e_value' => '0.0',
			'bit_score' => '1183',
			'alignment_length' => '1587',
			'identity_percentage' => '43.92',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS05G48200' => array(
			'gene_id' => 'OS05G48200',
			'e_value' => '0.0',
			'bit_score' => '1154',
			'alignment_length' => '1569',
			'identity_percentage' => '43.02',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_04G05480' => array(
			'gene_id' => 'MRCC299_04G05480',
			'e_value' => '0.0',
			'bit_score' => '1151',
			'alignment_length' => '1552',
			'identity_percentage' => '42.78',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00021G02760' => array(
			'gene_id' => 'ATR_00021G02760',
			'e_value' => '0.0',
			'bit_score' => '1150',
			'alignment_length' => '1558',
			'identity_percentage' => '42.62',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MP04G02170' => array(
			'gene_id' => 'MP04G02170',
			'e_value' => '0.0',
			'bit_score' => '1147',
			'alignment_length' => '1563',
			'identity_percentage' => '42.48',
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.195g00050' => array(
			'gene_id' => 'RCC4223.195g00050',
			'e_value' => '0.0',
			'bit_score' => '1144',
			'alignment_length' => '1517',
			'identity_percentage' => '41.40',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00079G00800' => array(
			'gene_id' => 'PP00079G00800',
			'e_value' => '0.0',
			'bit_score' => '1139',
			'alignment_length' => '1582',
			'identity_percentage' => '43.11',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT5G53460' => array(
			'gene_id' => 'AT5G53460',
			'e_value' => '0.0',
			'bit_score' => '1139',
			'alignment_length' => '1579',
			'identity_percentage' => '41.67',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00058G00660' => array(
			'gene_id' => 'PP00058G00660',
			'e_value' => '0.0',
			'bit_score' => '1133',
			'alignment_length' => '1583',
			'identity_percentage' => '42.83',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00081G01010' => array(
			'gene_id' => 'PP00081G01010',
			'e_value' => '0.0',
			'bit_score' => '1131',
			'alignment_length' => '1552',
			'identity_percentage' => '43.36',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.01g07000' => array(
			'gene_id' => 'RCC4223.01g07000',
			'e_value' => '0.0',
			'bit_score' => '1130',
			'alignment_length' => '1562',
			'identity_percentage' => '42.13',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS01G48960' => array(
			'gene_id' => 'OS01G48960',
			'e_value' => '0.0',
			'bit_score' => '1130',
			'alignment_length' => '1574',
			'identity_percentage' => '42.82',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP13G02310' => array(
			'gene_id' => 'TP13G02310',
			'e_value' => '0.0',
			'bit_score' => '1122',
			'alignment_length' => '1540',
			'identity_percentage' => '42.34',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00093G00670' => array(
			'gene_id' => 'PP00093G00670',
			'e_value' => '0.0',
			'bit_score' => '1120',
			'alignment_length' => '1554',
			'identity_percentage' => '42.66',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G22860' => array(
			'gene_id' => 'PI00G22860',
			'e_value' => '0.0',
			'bit_score' => '1120',
			'alignment_length' => '1563',
			'identity_percentage' => '41.84',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FBgn0036663' => array(
			'gene_id' => 'FBgn0036663',
			'e_value' => '0.0',
			'bit_score' => '1120',
			'alignment_length' => '1539',
			'identity_percentage' => '42.88',
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_22G02630' => array(
			'gene_id' => 'PTI_22G02630',
			'e_value' => '0.0',
			'bit_score' => '1112',
			'alignment_length' => '1545',
			'identity_percentage' => '42.14',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G133790' => array(
			'gene_id' => 'VC00G133790',
			'e_value' => '0.0',
			'bit_score' => '1110',
			'alignment_length' => '1610',
			'identity_percentage' => '42.73',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_001G04690' => array(
			'gene_id' => 'CNC64A_001G04690',
			'e_value' => '0.0',
			'bit_score' => '1103',
			'alignment_length' => '1566',
			'identity_percentage' => '42.40',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G54390' => array(
			'gene_id' => 'CV00G54390',
			'e_value' => '0.0',
			'bit_score' => '1101',
			'alignment_length' => '1556',
			'identity_percentage' => '42.80',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'WBGene00012326' => array(
			'gene_id' => 'WBGene00012326',
			'e_value' => '0.0',
			'bit_score' => '1096',
			'alignment_length' => '1576',
			'identity_percentage' => '42.13',
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'YDL171C' => array(
			'gene_id' => 'YDL171C',
			'e_value' => '0.0',
			'bit_score' => '1093',
			'alignment_length' => '1557',
			'identity_percentage' => '41.75',
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs298160' => array(
			'gene_id' => 'phs298160',
			'e_value' => '0.0',
			'bit_score' => '1092',
			'alignment_length' => '1545',
			'identity_percentage' => '42.14',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC002G02920' => array(
			'gene_id' => 'FC002G02920',
			'e_value' => '0.0',
			'bit_score' => '1089',
			'alignment_length' => '1535',
			'identity_percentage' => '41.89',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G33620' => array(
			'gene_id' => 'AP00G33620',
			'e_value' => '0.0',
			'bit_score' => '1088',
			'alignment_length' => '1566',
			'identity_percentage' => '43.04',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0023G00350' => array(
			'gene_id' => 'AA0023G00350',
			'e_value' => '0.0',
			'bit_score' => '1070',
			'alignment_length' => '1594',
			'identity_percentage' => '41.53',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0103G00160' => array(
			'gene_id' => 'ES0103G00160',
			'e_value' => '0.0',
			'bit_score' => '986',
			'alignment_length' => '1294',
			'identity_percentage' => '44.90',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.30g00360' => array(
			'gene_id' => 'RCC4223.30g00360',
			'e_value' => '0.0',
			'bit_score' => '966',
			'alignment_length' => '1544',
			'identity_percentage' => '38.47',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh373530' => array(
			'gene_id' => 'emh373530',
			'e_value' => '0.0',
			'bit_score' => '806',
			'alignment_length' => '909',
			'identity_percentage' => '50.06',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR13G06830' => array(
			'gene_id' => 'CR13G06830',
			'e_value' => '0.0',
			'bit_score' => '805',
			'alignment_length' => '1079',
			'identity_percentage' => '45.13',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_004G02410' => array(
			'gene_id' => 'CNC64A_004G02410',
			'e_value' => '0.0',
			'bit_score' => '669',
			'alignment_length' => '623',
			'identity_percentage' => '56.18',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh357800' => array(
			'gene_id' => 'emh357800',
			'e_value' => '4e-92',
			'bit_score' => '320',
			'alignment_length' => '652',
			'identity_percentage' => '33.90',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_709G00010' => array(
			'gene_id' => 'CNC64A_709G00010',
			'e_value' => '6e-84',
			'bit_score' => '278',
			'alignment_length' => '172',
			'identity_percentage' => '77.33',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'HE0000G02630' => array(
			'gene_id' => 'HE0000G02630',
			'e_value' => '3e-80',
			'bit_score' => '267',
			'alignment_length' => '157',
			'identity_percentage' => '82.17',
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs298440' => array(
			'gene_id' => 'phs298440',
			'e_value' => '3e-60',
			'bit_score' => '218',
			'alignment_length' => '362',
			'identity_percentage' => '39.23',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0103G00130' => array(
			'gene_id' => 'ES0103G00130',
			'e_value' => '9e-50',
			'bit_score' => '186',
			'alignment_length' => '253',
			'identity_percentage' => '39.92',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'HE0000G02800' => array(
			'gene_id' => 'HE0000G02800',
			'e_value' => '4e-42',
			'bit_score' => '159',
			'alignment_length' => '150',
			'identity_percentage' => '51.33',
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00403G00080' => array(
			'gene_id' => 'PP00403G00080',
			'e_value' => '6e-21',
			'bit_score' => '98.6',
			'alignment_length' => '118',
			'identity_percentage' => '47.46',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC002G03560' => array(
			'gene_id' => 'FC002G03560',
			'e_value' => '1e-20',
			'bit_score' => '102',
			'alignment_length' => '299',
			'identity_percentage' => '29.77',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_101061g3' => array(
			'gene_id' => 'Naga_101061g3',
			'e_value' => '4e-13',
			'bit_score' => '73.6',
			'alignment_length' => '91',
			'identity_percentage' => '43.96',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs298040' => array(
			'gene_id' => 'phs298040',
			'e_value' => '6e-10',
			'bit_score' => '63.5',
			'alignment_length' => '76',
			'identity_percentage' => '42.11',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh531880' => array(
			'gene_id' => 'emh531880',
			'e_value' => '3e-09',
			'bit_score' => '65.9',
			'alignment_length' => '247',
			'identity_percentage' => '26.72',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00392G00160' => array(
			'gene_id' => 'PP00392G00160',
			'e_value' => '6e-09',
			'bit_score' => '59.7',
			'alignment_length' => '58',
			'identity_percentage' => '46.55',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_101084g2' => array(
			'gene_id' => 'Naga_101084g2',
			'e_value' => '3e-08',
			'bit_score' => '59.3',
			'alignment_length' => '75',
			'identity_percentage' => '40.00',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES1167G00010' => array(
			'gene_id' => 'ES1167G00010',
			'e_value' => '3e-08',
			'bit_score' => '59.3',
			'alignment_length' => '102',
			'identity_percentage' => '37.25',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00011G01310' => array(
			'gene_id' => 'PP00011G01310',
			'e_value' => '4e-08',
			'bit_score' => '58.5',
			'alignment_length' => '101',
			'identity_percentage' => '31.68',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0349G00030' => array(
			'gene_id' => 'ES0349G00030',
			'e_value' => '5e-07',
			'bit_score' => '57.8',
			'alignment_length' => '77',
			'identity_percentage' => '40.26',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		)
	),
	'similarity_hits_species' => array(
		'vca' => array(
			(int) 0 => 'VC00G100720',
			(int) 1 => 'VC00G133790'
		),
		'cre' => array(
			(int) 0 => 'CR12G06740',
			(int) 1 => 'CR13G06830'
		),
		'acg' => array(
			(int) 0 => 'AC00G65230'
		),
		'cvu' => array(
			(int) 0 => 'CV00G44190',
			(int) 1 => 'CV00G54390'
		),
		'prcc4223' => array(
			(int) 0 => 'RCC4223.11g02190',
			(int) 1 => 'RCC4223.195g00050',
			(int) 2 => 'RCC4223.01g07000',
			(int) 3 => 'RCC4223.30g00360'
		),
		'pse3' => array(
			(int) 0 => 'PI00G40630',
			(int) 1 => 'PI00G22860'
		),
		'ppa' => array(
			(int) 0 => 'PP00212G00220',
			(int) 1 => 'PP00042G01290',
			(int) 2 => 'PP00079G00800',
			(int) 3 => 'PP00058G00660',
			(int) 4 => 'PP00081G01010',
			(int) 5 => 'PP00093G00670',
			(int) 6 => 'PP00403G00080',
			(int) 7 => 'PP00392G00160',
			(int) 8 => 'PP00011G01310'
		),
		'osa' => array(
			(int) 0 => 'OS07G46460',
			(int) 1 => 'OS05G48200',
			(int) 2 => 'OS01G48960'
		),
		'ath' => array(
			(int) 0 => 'AT5G04140',
			(int) 1 => 'AT2G41220',
			(int) 2 => 'AT5G53460'
		),
		'atr' => array(
			(int) 0 => 'ATR_00063G00700',
			(int) 1 => 'ATR_00021G02760'
		),
		'ome' => array(
			(int) 0 => 'OM_13G01370'
		),
		'orcc809' => array(
			(int) 0 => 'ORCC809_20G02050'
		),
		'ota' => array(
			(int) 0 => 'OT_14G02150'
		),
		'olu' => array(
			(int) 0 => 'OL20G02060'
		),
		'mpu' => array(
			(int) 0 => 'MP15G01340',
			(int) 1 => 'MP04G02170'
		),
		'bprrcc1105' => array(
			(int) 0 => 'BPRRCC1105_12G01040'
		),
		'mrcc299' => array(
			(int) 0 => 'MRCC299_13G02940',
			(int) 1 => 'MRCC299_04G05480'
		),
		'ccr' => array(
			(int) 0 => 'ccr04000'
		),
		'gsu' => array(
			(int) 0 => 'gsu53380'
		),
		'nga' => array(
			(int) 0 => 'Naga_100005g23',
			(int) 1 => 'Naga_101061g3',
			(int) 2 => 'Naga_101084g2'
		),
		'tps' => array(
			(int) 0 => 'TP17G00640',
			(int) 1 => 'TP13G02310'
		),
		'ptri' => array(
			(int) 0 => 'PTI_01G06310',
			(int) 1 => 'PTI_22G02630'
		),
		'esi' => array(
			(int) 0 => 'ES0000G02150',
			(int) 1 => 'ES0103G00160',
			(int) 2 => 'ES0103G00130',
			(int) 3 => 'ES1167G00010',
			(int) 4 => 'ES0349G00030'
		),
		'fcy' => array(
			(int) 0 => 'FC006G06510',
			(int) 1 => 'FC002G02920',
			(int) 2 => 'FC002G03560'
		),
		'cme' => array(
			(int) 0 => 'CMCG00600'
		),
		'apr' => array(
			(int) 0 => 'AP00G41850',
			(int) 1 => 'AP00G33620'
		),
		'scp' => array(
			(int) 0 => 'SPAPB1E7.07'
		),
		'aan' => array(
			(int) 0 => 'AA0006G04570',
			(int) 1 => 'AA0023G00350'
		),
		'drm' => array(
			(int) 0 => 'FBgn0036663'
		),
		'cnc64a' => array(
			(int) 0 => 'CNC64A_001G04690',
			(int) 1 => 'CNC64A_004G02410'
		),
		'cel' => array(
			(int) 0 => 'WBGene00012326'
		),
		'sac' => array(
			(int) 0 => 'YDL171C'
		),
		'phs' => array(
			(int) 0 => 'phs298160',
			(int) 1 => 'phs298440',
			(int) 2 => 'phs298040'
		),
		'emh' => array(
			(int) 0 => 'emh373530',
			(int) 1 => 'emh357800',
			(int) 2 => 'emh531880'
		),
		'hsp' => array(
			(int) 0 => 'HE0000G02630',
			(int) 1 => 'HE0000G02800'
		)
	),
	'gene_id' => 'VC00G100720',
	'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' => 'VC00G100720',
	'data_type' => 'gene_id',
	'allow_async_use' => true,
	'gene_placeholder' => 'OSCG01550',
	'gf_placeholder' => 'HOM03P017854',
	'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(
	'VC00G100720' => array(
		'gene_id' => 'VC00G100720',
		'e_value' => '0.0',
		'bit_score' => '3199',
		'alignment_length' => '1550',
		'identity_percentage' => '100.00',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CR12G06740' => array(
		'gene_id' => 'CR12G06740',
		'e_value' => '0.0',
		'bit_score' => '2893',
		'alignment_length' => '1553',
		'identity_percentage' => '88.67',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AC00G65230' => array(
		'gene_id' => 'AC00G65230',
		'e_value' => '0.0',
		'bit_score' => '2301',
		'alignment_length' => '1525',
		'identity_percentage' => '71.21',
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CV00G44190' => array(
		'gene_id' => 'CV00G44190',
		'e_value' => '0.0',
		'bit_score' => '2267',
		'alignment_length' => '1494',
		'identity_percentage' => '72.29',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.11g02190' => array(
		'gene_id' => 'RCC4223.11g02190',
		'e_value' => '0.0',
		'bit_score' => '2265',
		'alignment_length' => '1536',
		'identity_percentage' => '70.38',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PI00G40630' => array(
		'gene_id' => 'PI00G40630',
		'e_value' => '0.0',
		'bit_score' => '2263',
		'alignment_length' => '1540',
		'identity_percentage' => '70.39',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00212G00220' => array(
		'gene_id' => 'PP00212G00220',
		'e_value' => '0.0',
		'bit_score' => '2050',
		'alignment_length' => '1541',
		'identity_percentage' => '64.44',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OS07G46460' => array(
		'gene_id' => 'OS07G46460',
		'e_value' => '0.0',
		'bit_score' => '2019',
		'alignment_length' => '1528',
		'identity_percentage' => '63.48',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AT5G04140' => array(
		'gene_id' => 'AT5G04140',
		'e_value' => '0.0',
		'bit_score' => '2011',
		'alignment_length' => '1530',
		'identity_percentage' => '63.07',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ATR_00063G00700' => array(
		'gene_id' => 'ATR_00063G00700',
		'e_value' => '0.0',
		'bit_score' => '2003',
		'alignment_length' => '1545',
		'identity_percentage' => '61.94',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AT2G41220' => array(
		'gene_id' => 'AT2G41220',
		'e_value' => '0.0',
		'bit_score' => '2000',
		'alignment_length' => '1542',
		'identity_percentage' => '61.93',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OM_13G01370' => array(
		'gene_id' => 'OM_13G01370',
		'e_value' => '0.0',
		'bit_score' => '1999',
		'alignment_length' => '1540',
		'identity_percentage' => '63.38',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ORCC809_20G02050' => array(
		'gene_id' => 'ORCC809_20G02050',
		'e_value' => '0.0',
		'bit_score' => '1997',
		'alignment_length' => '1529',
		'identity_percentage' => '64.22',
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OT_14G02150' => array(
		'gene_id' => 'OT_14G02150',
		'e_value' => '0.0',
		'bit_score' => '1996',
		'alignment_length' => '1538',
		'identity_percentage' => '63.85',
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00042G01290' => array(
		'gene_id' => 'PP00042G01290',
		'e_value' => '0.0',
		'bit_score' => '1994',
		'alignment_length' => '1563',
		'identity_percentage' => '62.44',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OL20G02060' => array(
		'gene_id' => 'OL20G02060',
		'e_value' => '0.0',
		'bit_score' => '1991',
		'alignment_length' => '1529',
		'identity_percentage' => '63.90',
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MP15G01340' => array(
		'gene_id' => 'MP15G01340',
		'e_value' => '0.0',
		'bit_score' => '1952',
		'alignment_length' => '1555',
		'identity_percentage' => '62.77',
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'BPRRCC1105_12G01040' => array(
		'gene_id' => 'BPRRCC1105_12G01040',
		'e_value' => '0.0',
		'bit_score' => '1943',
		'alignment_length' => '1544',
		'identity_percentage' => '61.59',
		'species' => 'bprrcc1105',
		'common_name' => 'Bathycoccus prasinos',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MRCC299_13G02940' => array(
		'gene_id' => 'MRCC299_13G02940',
		'e_value' => '0.0',
		'bit_score' => '1910',
		'alignment_length' => '1558',
		'identity_percentage' => '62.26',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ccr04000' => array(
		'gene_id' => 'ccr04000',
		'e_value' => '0.0',
		'bit_score' => '1701',
		'alignment_length' => '1521',
		'identity_percentage' => '55.10',
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'gsu53380' => array(
		'gene_id' => 'gsu53380',
		'e_value' => '0.0',
		'bit_score' => '1648',
		'alignment_length' => '1496',
		'identity_percentage' => '55.08',
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'Naga_100005g23' => array(
		'gene_id' => 'Naga_100005g23',
		'e_value' => '0.0',
		'bit_score' => '1632',
		'alignment_length' => '1555',
		'identity_percentage' => '54.41',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'TP17G00640' => array(
		'gene_id' => 'TP17G00640',
		'e_value' => '0.0',
		'bit_score' => '1630',
		'alignment_length' => '1562',
		'identity_percentage' => '53.52',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PTI_01G06310' => array(
		'gene_id' => 'PTI_01G06310',
		'e_value' => '0.0',
		'bit_score' => '1588',
		'alignment_length' => '1604',
		'identity_percentage' => '52.12',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ES0000G02150' => array(
		'gene_id' => 'ES0000G02150',
		'e_value' => '0.0',
		'bit_score' => '1575',
		'alignment_length' => '1570',
		'identity_percentage' => '52.68',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'FC006G06510' => array(
		'gene_id' => 'FC006G06510',
		'e_value' => '0.0',
		'bit_score' => '1573',
		'alignment_length' => '1614',
		'identity_percentage' => '52.42',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CMCG00600' => array(
		'gene_id' => 'CMCG00600',
		'e_value' => '0.0',
		'bit_score' => '1563',
		'alignment_length' => '1527',
		'identity_percentage' => '53.57',
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AP00G41850' => array(
		'gene_id' => 'AP00G41850',
		'e_value' => '0.0',
		'bit_score' => '1239',
		'alignment_length' => '853',
		'identity_percentage' => '71.40',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'SPAPB1E7.07' => array(
		'gene_id' => 'SPAPB1E7.07',
		'e_value' => '0.0',
		'bit_score' => '1210',
		'alignment_length' => '1554',
		'identity_percentage' => '43.82',
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AA0006G04570' => array(
		'gene_id' => 'AA0006G04570',
		'e_value' => '0.0',
		'bit_score' => '1183',
		'alignment_length' => '1587',
		'identity_percentage' => '43.92',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OS05G48200' => array(
		'gene_id' => 'OS05G48200',
		'e_value' => '0.0',
		'bit_score' => '1154',
		'alignment_length' => '1569',
		'identity_percentage' => '43.02',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MRCC299_04G05480' => array(
		'gene_id' => 'MRCC299_04G05480',
		'e_value' => '0.0',
		'bit_score' => '1151',
		'alignment_length' => '1552',
		'identity_percentage' => '42.78',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ATR_00021G02760' => array(
		'gene_id' => 'ATR_00021G02760',
		'e_value' => '0.0',
		'bit_score' => '1150',
		'alignment_length' => '1558',
		'identity_percentage' => '42.62',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MP04G02170' => array(
		'gene_id' => 'MP04G02170',
		'e_value' => '0.0',
		'bit_score' => '1147',
		'alignment_length' => '1563',
		'identity_percentage' => '42.48',
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.195g00050' => array(
		'gene_id' => 'RCC4223.195g00050',
		'e_value' => '0.0',
		'bit_score' => '1144',
		'alignment_length' => '1517',
		'identity_percentage' => '41.40',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00079G00800' => array(
		'gene_id' => 'PP00079G00800',
		'e_value' => '0.0',
		'bit_score' => '1139',
		'alignment_length' => '1582',
		'identity_percentage' => '43.11',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AT5G53460' => array(
		'gene_id' => 'AT5G53460',
		'e_value' => '0.0',
		'bit_score' => '1139',
		'alignment_length' => '1579',
		'identity_percentage' => '41.67',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00058G00660' => array(
		'gene_id' => 'PP00058G00660',
		'e_value' => '0.0',
		'bit_score' => '1133',
		'alignment_length' => '1583',
		'identity_percentage' => '42.83',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00081G01010' => array(
		'gene_id' => 'PP00081G01010',
		'e_value' => '0.0',
		'bit_score' => '1131',
		'alignment_length' => '1552',
		'identity_percentage' => '43.36',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.01g07000' => array(
		'gene_id' => 'RCC4223.01g07000',
		'e_value' => '0.0',
		'bit_score' => '1130',
		'alignment_length' => '1562',
		'identity_percentage' => '42.13',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OS01G48960' => array(
		'gene_id' => 'OS01G48960',
		'e_value' => '0.0',
		'bit_score' => '1130',
		'alignment_length' => '1574',
		'identity_percentage' => '42.82',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'TP13G02310' => array(
		'gene_id' => 'TP13G02310',
		'e_value' => '0.0',
		'bit_score' => '1122',
		'alignment_length' => '1540',
		'identity_percentage' => '42.34',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00093G00670' => array(
		'gene_id' => 'PP00093G00670',
		'e_value' => '0.0',
		'bit_score' => '1120',
		'alignment_length' => '1554',
		'identity_percentage' => '42.66',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PI00G22860' => array(
		'gene_id' => 'PI00G22860',
		'e_value' => '0.0',
		'bit_score' => '1120',
		'alignment_length' => '1563',
		'identity_percentage' => '41.84',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'FBgn0036663' => array(
		'gene_id' => 'FBgn0036663',
		'e_value' => '0.0',
		'bit_score' => '1120',
		'alignment_length' => '1539',
		'identity_percentage' => '42.88',
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PTI_22G02630' => array(
		'gene_id' => 'PTI_22G02630',
		'e_value' => '0.0',
		'bit_score' => '1112',
		'alignment_length' => '1545',
		'identity_percentage' => '42.14',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'VC00G133790' => array(
		'gene_id' => 'VC00G133790',
		'e_value' => '0.0',
		'bit_score' => '1110',
		'alignment_length' => '1610',
		'identity_percentage' => '42.73',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CNC64A_001G04690' => array(
		'gene_id' => 'CNC64A_001G04690',
		'e_value' => '0.0',
		'bit_score' => '1103',
		'alignment_length' => '1566',
		'identity_percentage' => '42.40',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CV00G54390' => array(
		'gene_id' => 'CV00G54390',
		'e_value' => '0.0',
		'bit_score' => '1101',
		'alignment_length' => '1556',
		'identity_percentage' => '42.80',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'WBGene00012326' => array(
		'gene_id' => 'WBGene00012326',
		'e_value' => '0.0',
		'bit_score' => '1096',
		'alignment_length' => '1576',
		'identity_percentage' => '42.13',
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'YDL171C' => array(
		'gene_id' => 'YDL171C',
		'e_value' => '0.0',
		'bit_score' => '1093',
		'alignment_length' => '1557',
		'identity_percentage' => '41.75',
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'phs298160' => array(
		'gene_id' => 'phs298160',
		'e_value' => '0.0',
		'bit_score' => '1092',
		'alignment_length' => '1545',
		'identity_percentage' => '42.14',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'FC002G02920' => array(
		'gene_id' => 'FC002G02920',
		'e_value' => '0.0',
		'bit_score' => '1089',
		'alignment_length' => '1535',
		'identity_percentage' => '41.89',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AP00G33620' => array(
		'gene_id' => 'AP00G33620',
		'e_value' => '0.0',
		'bit_score' => '1088',
		'alignment_length' => '1566',
		'identity_percentage' => '43.04',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AA0023G00350' => array(
		'gene_id' => 'AA0023G00350',
		'e_value' => '0.0',
		'bit_score' => '1070',
		'alignment_length' => '1594',
		'identity_percentage' => '41.53',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ES0103G00160' => array(
		'gene_id' => 'ES0103G00160',
		'e_value' => '0.0',
		'bit_score' => '986',
		'alignment_length' => '1294',
		'identity_percentage' => '44.90',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.30g00360' => array(
		'gene_id' => 'RCC4223.30g00360',
		'e_value' => '0.0',
		'bit_score' => '966',
		'alignment_length' => '1544',
		'identity_percentage' => '38.47',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'emh373530' => array(
		'gene_id' => 'emh373530',
		'e_value' => '0.0',
		'bit_score' => '806',
		'alignment_length' => '909',
		'identity_percentage' => '50.06',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CR13G06830' => array(
		'gene_id' => 'CR13G06830',
		'e_value' => '0.0',
		'bit_score' => '805',
		'alignment_length' => '1079',
		'identity_percentage' => '45.13',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CNC64A_004G02410' => array(
		'gene_id' => 'CNC64A_004G02410',
		'e_value' => '0.0',
		'bit_score' => '669',
		'alignment_length' => '623',
		'identity_percentage' => '56.18',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'emh357800' => array(
		'gene_id' => 'emh357800',
		'e_value' => '4e-92',
		'bit_score' => '320',
		'alignment_length' => '652',
		'identity_percentage' => '33.90',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CNC64A_709G00010' => array(
		'gene_id' => 'CNC64A_709G00010',
		'e_value' => '6e-84',
		'bit_score' => '278',
		'alignment_length' => '172',
		'identity_percentage' => '77.33',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P095573'
		)
	),
	'HE0000G02630' => array(
		'gene_id' => 'HE0000G02630',
		'e_value' => '3e-80',
		'bit_score' => '267',
		'alignment_length' => '157',
		'identity_percentage' => '82.17',
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'phs298440' => array(
		'gene_id' => 'phs298440',
		'e_value' => '3e-60',
		'bit_score' => '218',
		'alignment_length' => '362',
		'identity_percentage' => '39.23',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ES0103G00130' => array(
		'gene_id' => 'ES0103G00130',
		'e_value' => '9e-50',
		'bit_score' => '186',
		'alignment_length' => '253',
		'identity_percentage' => '39.92',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P074739'
		)
	),
	'HE0000G02800' => array(
		'gene_id' => 'HE0000G02800',
		'e_value' => '4e-42',
		'bit_score' => '159',
		'alignment_length' => '150',
		'identity_percentage' => '51.33',
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00403G00080' => array(
		'gene_id' => 'PP00403G00080',
		'e_value' => '6e-21',
		'bit_score' => '98.6',
		'alignment_length' => '118',
		'identity_percentage' => '47.46',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P115831'
		)
	),
	'FC002G03560' => array(
		'gene_id' => 'FC002G03560',
		'e_value' => '1e-20',
		'bit_score' => '102',
		'alignment_length' => '299',
		'identity_percentage' => '29.77',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P039428'
		)
	),
	'Naga_101061g3' => array(
		'gene_id' => 'Naga_101061g3',
		'e_value' => '4e-13',
		'bit_score' => '73.6',
		'alignment_length' => '91',
		'identity_percentage' => '43.96',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P170029'
		)
	),
	'phs298040' => array(
		'gene_id' => 'phs298040',
		'e_value' => '6e-10',
		'bit_score' => '63.5',
		'alignment_length' => '76',
		'identity_percentage' => '42.11',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P165199'
		)
	),
	'emh531880' => array(
		'gene_id' => 'emh531880',
		'e_value' => '3e-09',
		'bit_score' => '65.9',
		'alignment_length' => '247',
		'identity_percentage' => '26.72',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P039428'
		)
	),
	'PP00392G00160' => array(
		'gene_id' => 'PP00392G00160',
		'e_value' => '6e-09',
		'bit_score' => '59.7',
		'alignment_length' => '58',
		'identity_percentage' => '46.55',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P109561'
		)
	),
	'Naga_101084g2' => array(
		'gene_id' => 'Naga_101084g2',
		'e_value' => '3e-08',
		'bit_score' => '59.3',
		'alignment_length' => '75',
		'identity_percentage' => '40.00',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P074739'
		)
	),
	'ES1167G00010' => array(
		'gene_id' => 'ES1167G00010',
		'e_value' => '3e-08',
		'bit_score' => '59.3',
		'alignment_length' => '102',
		'identity_percentage' => '37.25',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P115753'
		)
	),
	'PP00011G01310' => array(
		'gene_id' => 'PP00011G01310',
		'e_value' => '4e-08',
		'bit_score' => '58.5',
		'alignment_length' => '101',
		'identity_percentage' => '31.68',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P181114'
		)
	),
	'ES0349G00030' => array(
		'gene_id' => 'ES0349G00030',
		'e_value' => '5e-07',
		'bit_score' => '57.8',
		'alignment_length' => '77',
		'identity_percentage' => '40.26',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P039428'
		)
	)
)
$similarity_hits_species = array(
	'vca' => array(
		(int) 0 => 'VC00G100720',
		(int) 1 => 'VC00G133790'
	),
	'cre' => array(
		(int) 0 => 'CR12G06740',
		(int) 1 => 'CR13G06830'
	),
	'acg' => array(
		(int) 0 => 'AC00G65230'
	),
	'cvu' => array(
		(int) 0 => 'CV00G44190',
		(int) 1 => 'CV00G54390'
	),
	'prcc4223' => array(
		(int) 0 => 'RCC4223.11g02190',
		(int) 1 => 'RCC4223.195g00050',
		(int) 2 => 'RCC4223.01g07000',
		(int) 3 => 'RCC4223.30g00360'
	),
	'pse3' => array(
		(int) 0 => 'PI00G40630',
		(int) 1 => 'PI00G22860'
	),
	'ppa' => array(
		(int) 0 => 'PP00212G00220',
		(int) 1 => 'PP00042G01290',
		(int) 2 => 'PP00079G00800',
		(int) 3 => 'PP00058G00660',
		(int) 4 => 'PP00081G01010',
		(int) 5 => 'PP00093G00670',
		(int) 6 => 'PP00403G00080',
		(int) 7 => 'PP00392G00160',
		(int) 8 => 'PP00011G01310'
	),
	'osa' => array(
		(int) 0 => 'OS07G46460',
		(int) 1 => 'OS05G48200',
		(int) 2 => 'OS01G48960'
	),
	'ath' => array(
		(int) 0 => 'AT5G04140',
		(int) 1 => 'AT2G41220',
		(int) 2 => 'AT5G53460'
	),
	'atr' => array(
		(int) 0 => 'ATR_00063G00700',
		(int) 1 => 'ATR_00021G02760'
	),
	'ome' => array(
		(int) 0 => 'OM_13G01370'
	),
	'orcc809' => array(
		(int) 0 => 'ORCC809_20G02050'
	),
	'ota' => array(
		(int) 0 => 'OT_14G02150'
	),
	'olu' => array(
		(int) 0 => 'OL20G02060'
	),
	'mpu' => array(
		(int) 0 => 'MP15G01340',
		(int) 1 => 'MP04G02170'
	),
	'bprrcc1105' => array(
		(int) 0 => 'BPRRCC1105_12G01040'
	),
	'mrcc299' => array(
		(int) 0 => 'MRCC299_13G02940',
		(int) 1 => 'MRCC299_04G05480'
	),
	'ccr' => array(
		(int) 0 => 'ccr04000'
	),
	'gsu' => array(
		(int) 0 => 'gsu53380'
	),
	'nga' => array(
		(int) 0 => 'Naga_100005g23',
		(int) 1 => 'Naga_101061g3',
		(int) 2 => 'Naga_101084g2'
	),
	'tps' => array(
		(int) 0 => 'TP17G00640',
		(int) 1 => 'TP13G02310'
	),
	'ptri' => array(
		(int) 0 => 'PTI_01G06310',
		(int) 1 => 'PTI_22G02630'
	),
	'esi' => array(
		(int) 0 => 'ES0000G02150',
		(int) 1 => 'ES0103G00160',
		(int) 2 => 'ES0103G00130',
		(int) 3 => 'ES1167G00010',
		(int) 4 => 'ES0349G00030'
	),
	'fcy' => array(
		(int) 0 => 'FC006G06510',
		(int) 1 => 'FC002G02920',
		(int) 2 => 'FC002G03560'
	),
	'cme' => array(
		(int) 0 => 'CMCG00600'
	),
	'apr' => array(
		(int) 0 => 'AP00G41850',
		(int) 1 => 'AP00G33620'
	),
	'scp' => array(
		(int) 0 => 'SPAPB1E7.07'
	),
	'aan' => array(
		(int) 0 => 'AA0006G04570',
		(int) 1 => 'AA0023G00350'
	),
	'drm' => array(
		(int) 0 => 'FBgn0036663'
	),
	'cnc64a' => array(
		(int) 0 => 'CNC64A_001G04690',
		(int) 1 => 'CNC64A_004G02410'
	),
	'cel' => array(
		(int) 0 => 'WBGene00012326'
	),
	'sac' => array(
		(int) 0 => 'YDL171C'
	),
	'phs' => array(
		(int) 0 => 'phs298160',
		(int) 1 => 'phs298440',
		(int) 2 => 'phs298040'
	),
	'emh' => array(
		(int) 0 => 'emh373530',
		(int) 1 => 'emh357800',
		(int) 2 => 'emh531880'
	),
	'hsp' => array(
		(int) 0 => 'HE0000G02630',
		(int) 1 => 'HE0000G02800'
	)
)
$gene_id = 'VC00G100720'
$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 = 'VC00G100720'
$data_type = 'gene_id'
$allow_async_use = true
$gene_placeholder = 'OSCG01550'
$gf_placeholder = 'HOM03P017854'
$title_for_layout = 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
$collapse1 = ''
$collapse2 = 'collapse in'
$similarity_hit = array(
	'gene_id' => 'CNC64A_709G00010',
	'e_value' => '6e-84',
	'bit_score' => '278',
	'alignment_length' => '172',
	'identity_percentage' => '77.33',
	'gf' => array(
		'HOMFAM' => 'HOM03P000541',
		'ORTHOFAM' => 'ORTHO03P095573'
	)
)
$checked = null
$similarity_hit_gene = 'CNC64A_709G00010'
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(
		'VC00G100720' => array(
			'gene_id' => 'VC00G100720',
			'e_value' => '0.0',
			'bit_score' => '3199',
			'alignment_length' => '1550',
			'identity_percentage' => '100.00',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR12G06740' => array(
			'gene_id' => 'CR12G06740',
			'e_value' => '0.0',
			'bit_score' => '2893',
			'alignment_length' => '1553',
			'identity_percentage' => '88.67',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AC00G65230' => array(
			'gene_id' => 'AC00G65230',
			'e_value' => '0.0',
			'bit_score' => '2301',
			'alignment_length' => '1525',
			'identity_percentage' => '71.21',
			'species' => 'acg',
			'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G44190' => array(
			'gene_id' => 'CV00G44190',
			'e_value' => '0.0',
			'bit_score' => '2267',
			'alignment_length' => '1494',
			'identity_percentage' => '72.29',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.11g02190' => array(
			'gene_id' => 'RCC4223.11g02190',
			'e_value' => '0.0',
			'bit_score' => '2265',
			'alignment_length' => '1536',
			'identity_percentage' => '70.38',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G40630' => array(
			'gene_id' => 'PI00G40630',
			'e_value' => '0.0',
			'bit_score' => '2263',
			'alignment_length' => '1540',
			'identity_percentage' => '70.39',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00212G00220' => array(
			'gene_id' => 'PP00212G00220',
			'e_value' => '0.0',
			'bit_score' => '2050',
			'alignment_length' => '1541',
			'identity_percentage' => '64.44',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS07G46460' => array(
			'gene_id' => 'OS07G46460',
			'e_value' => '0.0',
			'bit_score' => '2019',
			'alignment_length' => '1528',
			'identity_percentage' => '63.48',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT5G04140' => array(
			'gene_id' => 'AT5G04140',
			'e_value' => '0.0',
			'bit_score' => '2011',
			'alignment_length' => '1530',
			'identity_percentage' => '63.07',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00063G00700' => array(
			'gene_id' => 'ATR_00063G00700',
			'e_value' => '0.0',
			'bit_score' => '2003',
			'alignment_length' => '1545',
			'identity_percentage' => '61.94',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT2G41220' => array(
			'gene_id' => 'AT2G41220',
			'e_value' => '0.0',
			'bit_score' => '2000',
			'alignment_length' => '1542',
			'identity_percentage' => '61.93',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OM_13G01370' => array(
			'gene_id' => 'OM_13G01370',
			'e_value' => '0.0',
			'bit_score' => '1999',
			'alignment_length' => '1540',
			'identity_percentage' => '63.38',
			'species' => 'ome',
			'common_name' => 'Ostreococcus mediterraneus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ORCC809_20G02050' => array(
			'gene_id' => 'ORCC809_20G02050',
			'e_value' => '0.0',
			'bit_score' => '1997',
			'alignment_length' => '1529',
			'identity_percentage' => '64.22',
			'species' => 'orcc809',
			'common_name' => 'Ostreococcus sp RCC809',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OT_14G02150' => array(
			'gene_id' => 'OT_14G02150',
			'e_value' => '0.0',
			'bit_score' => '1996',
			'alignment_length' => '1538',
			'identity_percentage' => '63.85',
			'species' => 'ota',
			'common_name' => 'Ostreococcus tauri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00042G01290' => array(
			'gene_id' => 'PP00042G01290',
			'e_value' => '0.0',
			'bit_score' => '1994',
			'alignment_length' => '1563',
			'identity_percentage' => '62.44',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OL20G02060' => array(
			'gene_id' => 'OL20G02060',
			'e_value' => '0.0',
			'bit_score' => '1991',
			'alignment_length' => '1529',
			'identity_percentage' => '63.90',
			'species' => 'olu',
			'common_name' => 'Ostreococcus lucimarinus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MP15G01340' => array(
			'gene_id' => 'MP15G01340',
			'e_value' => '0.0',
			'bit_score' => '1952',
			'alignment_length' => '1555',
			'identity_percentage' => '62.77',
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'BPRRCC1105_12G01040' => array(
			'gene_id' => 'BPRRCC1105_12G01040',
			'e_value' => '0.0',
			'bit_score' => '1943',
			'alignment_length' => '1544',
			'identity_percentage' => '61.59',
			'species' => 'bprrcc1105',
			'common_name' => 'Bathycoccus prasinos',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_13G02940' => array(
			'gene_id' => 'MRCC299_13G02940',
			'e_value' => '0.0',
			'bit_score' => '1910',
			'alignment_length' => '1558',
			'identity_percentage' => '62.26',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ccr04000' => array(
			'gene_id' => 'ccr04000',
			'e_value' => '0.0',
			'bit_score' => '1701',
			'alignment_length' => '1521',
			'identity_percentage' => '55.10',
			'species' => 'ccr',
			'common_name' => 'Chondrus crispus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'gsu53380' => array(
			'gene_id' => 'gsu53380',
			'e_value' => '0.0',
			'bit_score' => '1648',
			'alignment_length' => '1496',
			'identity_percentage' => '55.08',
			'species' => 'gsu',
			'common_name' => 'Galdieria sulphuraria',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_100005g23' => array(
			'gene_id' => 'Naga_100005g23',
			'e_value' => '0.0',
			'bit_score' => '1632',
			'alignment_length' => '1555',
			'identity_percentage' => '54.41',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP17G00640' => array(
			'gene_id' => 'TP17G00640',
			'e_value' => '0.0',
			'bit_score' => '1630',
			'alignment_length' => '1562',
			'identity_percentage' => '53.52',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_01G06310' => array(
			'gene_id' => 'PTI_01G06310',
			'e_value' => '0.0',
			'bit_score' => '1588',
			'alignment_length' => '1604',
			'identity_percentage' => '52.12',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0000G02150' => array(
			'gene_id' => 'ES0000G02150',
			'e_value' => '0.0',
			'bit_score' => '1575',
			'alignment_length' => '1570',
			'identity_percentage' => '52.68',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC006G06510' => array(
			'gene_id' => 'FC006G06510',
			'e_value' => '0.0',
			'bit_score' => '1573',
			'alignment_length' => '1614',
			'identity_percentage' => '52.42',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CMCG00600' => array(
			'gene_id' => 'CMCG00600',
			'e_value' => '0.0',
			'bit_score' => '1563',
			'alignment_length' => '1527',
			'identity_percentage' => '53.57',
			'species' => 'cme',
			'common_name' => 'Cyanidioschyzon merolae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G41850' => array(
			'gene_id' => 'AP00G41850',
			'e_value' => '0.0',
			'bit_score' => '1239',
			'alignment_length' => '853',
			'identity_percentage' => '71.40',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'SPAPB1E7.07' => array(
			'gene_id' => 'SPAPB1E7.07',
			'e_value' => '0.0',
			'bit_score' => '1210',
			'alignment_length' => '1554',
			'identity_percentage' => '43.82',
			'species' => 'scp',
			'common_name' => 'Schizosaccharomyces pombe',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0006G04570' => array(
			'gene_id' => 'AA0006G04570',
			'e_value' => '0.0',
			'bit_score' => '1183',
			'alignment_length' => '1587',
			'identity_percentage' => '43.92',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS05G48200' => array(
			'gene_id' => 'OS05G48200',
			'e_value' => '0.0',
			'bit_score' => '1154',
			'alignment_length' => '1569',
			'identity_percentage' => '43.02',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MRCC299_04G05480' => array(
			'gene_id' => 'MRCC299_04G05480',
			'e_value' => '0.0',
			'bit_score' => '1151',
			'alignment_length' => '1552',
			'identity_percentage' => '42.78',
			'species' => 'mrcc299',
			'common_name' => 'Micromonas sp RCC299',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ATR_00021G02760' => array(
			'gene_id' => 'ATR_00021G02760',
			'e_value' => '0.0',
			'bit_score' => '1150',
			'alignment_length' => '1558',
			'identity_percentage' => '42.62',
			'species' => 'atr',
			'common_name' => 'Amborella trichopoda',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'MP04G02170' => array(
			'gene_id' => 'MP04G02170',
			'e_value' => '0.0',
			'bit_score' => '1147',
			'alignment_length' => '1563',
			'identity_percentage' => '42.48',
			'species' => 'mpu',
			'common_name' => 'Micromonas pusilla strain CCMP1545',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.195g00050' => array(
			'gene_id' => 'RCC4223.195g00050',
			'e_value' => '0.0',
			'bit_score' => '1144',
			'alignment_length' => '1517',
			'identity_percentage' => '41.40',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00079G00800' => array(
			'gene_id' => 'PP00079G00800',
			'e_value' => '0.0',
			'bit_score' => '1139',
			'alignment_length' => '1582',
			'identity_percentage' => '43.11',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AT5G53460' => array(
			'gene_id' => 'AT5G53460',
			'e_value' => '0.0',
			'bit_score' => '1139',
			'alignment_length' => '1579',
			'identity_percentage' => '41.67',
			'species' => 'ath',
			'common_name' => 'Arabidopsis thaliana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00058G00660' => array(
			'gene_id' => 'PP00058G00660',
			'e_value' => '0.0',
			'bit_score' => '1133',
			'alignment_length' => '1583',
			'identity_percentage' => '42.83',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00081G01010' => array(
			'gene_id' => 'PP00081G01010',
			'e_value' => '0.0',
			'bit_score' => '1131',
			'alignment_length' => '1552',
			'identity_percentage' => '43.36',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.01g07000' => array(
			'gene_id' => 'RCC4223.01g07000',
			'e_value' => '0.0',
			'bit_score' => '1130',
			'alignment_length' => '1562',
			'identity_percentage' => '42.13',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'OS01G48960' => array(
			'gene_id' => 'OS01G48960',
			'e_value' => '0.0',
			'bit_score' => '1130',
			'alignment_length' => '1574',
			'identity_percentage' => '42.82',
			'species' => 'osa',
			'common_name' => 'Oryza sativa',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'TP13G02310' => array(
			'gene_id' => 'TP13G02310',
			'e_value' => '0.0',
			'bit_score' => '1122',
			'alignment_length' => '1540',
			'identity_percentage' => '42.34',
			'species' => 'tps',
			'common_name' => 'Thalassiosira pseudonana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00093G00670' => array(
			'gene_id' => 'PP00093G00670',
			'e_value' => '0.0',
			'bit_score' => '1120',
			'alignment_length' => '1554',
			'identity_percentage' => '42.66',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PI00G22860' => array(
			'gene_id' => 'PI00G22860',
			'e_value' => '0.0',
			'bit_score' => '1120',
			'alignment_length' => '1563',
			'identity_percentage' => '41.84',
			'species' => 'pse3',
			'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FBgn0036663' => array(
			'gene_id' => 'FBgn0036663',
			'e_value' => '0.0',
			'bit_score' => '1120',
			'alignment_length' => '1539',
			'identity_percentage' => '42.88',
			'species' => 'drm',
			'common_name' => 'Drosophila melanogaster',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PTI_22G02630' => array(
			'gene_id' => 'PTI_22G02630',
			'e_value' => '0.0',
			'bit_score' => '1112',
			'alignment_length' => '1545',
			'identity_percentage' => '42.14',
			'species' => 'ptri',
			'common_name' => 'Phaeodactylum tricornutum',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'VC00G133790' => array(
			'gene_id' => 'VC00G133790',
			'e_value' => '0.0',
			'bit_score' => '1110',
			'alignment_length' => '1610',
			'identity_percentage' => '42.73',
			'species' => 'vca',
			'common_name' => 'Volvox carteri',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_001G04690' => array(
			'gene_id' => 'CNC64A_001G04690',
			'e_value' => '0.0',
			'bit_score' => '1103',
			'alignment_length' => '1566',
			'identity_percentage' => '42.40',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CV00G54390' => array(
			'gene_id' => 'CV00G54390',
			'e_value' => '0.0',
			'bit_score' => '1101',
			'alignment_length' => '1556',
			'identity_percentage' => '42.80',
			'species' => 'cvu',
			'common_name' => 'Coccomyxa subellipsoidea C-169',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'WBGene00012326' => array(
			'gene_id' => 'WBGene00012326',
			'e_value' => '0.0',
			'bit_score' => '1096',
			'alignment_length' => '1576',
			'identity_percentage' => '42.13',
			'species' => 'cel',
			'common_name' => 'Caenorhabditis elegans',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'YDL171C' => array(
			'gene_id' => 'YDL171C',
			'e_value' => '0.0',
			'bit_score' => '1093',
			'alignment_length' => '1557',
			'identity_percentage' => '41.75',
			'species' => 'sac',
			'common_name' => 'Saccharomyces cerevisiae strain S288C',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs298160' => array(
			'gene_id' => 'phs298160',
			'e_value' => '0.0',
			'bit_score' => '1092',
			'alignment_length' => '1545',
			'identity_percentage' => '42.14',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC002G02920' => array(
			'gene_id' => 'FC002G02920',
			'e_value' => '0.0',
			'bit_score' => '1089',
			'alignment_length' => '1535',
			'identity_percentage' => '41.89',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AP00G33620' => array(
			'gene_id' => 'AP00G33620',
			'e_value' => '0.0',
			'bit_score' => '1088',
			'alignment_length' => '1566',
			'identity_percentage' => '43.04',
			'species' => 'apr',
			'common_name' => 'Auxenochlorella protothecoides',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'AA0023G00350' => array(
			'gene_id' => 'AA0023G00350',
			'e_value' => '0.0',
			'bit_score' => '1070',
			'alignment_length' => '1594',
			'identity_percentage' => '41.53',
			'species' => 'aan',
			'common_name' => 'Aureococcus anophagefferens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0103G00160' => array(
			'gene_id' => 'ES0103G00160',
			'e_value' => '0.0',
			'bit_score' => '986',
			'alignment_length' => '1294',
			'identity_percentage' => '44.90',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'RCC4223.30g00360' => array(
			'gene_id' => 'RCC4223.30g00360',
			'e_value' => '0.0',
			'bit_score' => '966',
			'alignment_length' => '1544',
			'identity_percentage' => '38.47',
			'species' => 'prcc4223',
			'common_name' => 'Picochlorum_RCC4223',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh373530' => array(
			'gene_id' => 'emh373530',
			'e_value' => '0.0',
			'bit_score' => '806',
			'alignment_length' => '909',
			'identity_percentage' => '50.06',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CR13G06830' => array(
			'gene_id' => 'CR13G06830',
			'e_value' => '0.0',
			'bit_score' => '805',
			'alignment_length' => '1079',
			'identity_percentage' => '45.13',
			'species' => 'cre',
			'common_name' => 'Chlamydomonas reinhardtii',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_004G02410' => array(
			'gene_id' => 'CNC64A_004G02410',
			'e_value' => '0.0',
			'bit_score' => '669',
			'alignment_length' => '623',
			'identity_percentage' => '56.18',
			'species' => 'cnc64a',
			'common_name' => 'Chlorella sp NC64A',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh357800' => array(
			'gene_id' => 'emh357800',
			'e_value' => '4e-92',
			'bit_score' => '320',
			'alignment_length' => '652',
			'identity_percentage' => '33.90',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'CNC64A_709G00010' => array(
			'gene_id' => 'CNC64A_709G00010',
			'e_value' => '6e-84',
			'bit_score' => '278',
			'alignment_length' => '172',
			'identity_percentage' => '77.33',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'HE0000G02630' => array(
			'gene_id' => 'HE0000G02630',
			'e_value' => '3e-80',
			'bit_score' => '267',
			'alignment_length' => '157',
			'identity_percentage' => '82.17',
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs298440' => array(
			'gene_id' => 'phs298440',
			'e_value' => '3e-60',
			'bit_score' => '218',
			'alignment_length' => '362',
			'identity_percentage' => '39.23',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0103G00130' => array(
			'gene_id' => 'ES0103G00130',
			'e_value' => '9e-50',
			'bit_score' => '186',
			'alignment_length' => '253',
			'identity_percentage' => '39.92',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'HE0000G02800' => array(
			'gene_id' => 'HE0000G02800',
			'e_value' => '4e-42',
			'bit_score' => '159',
			'alignment_length' => '150',
			'identity_percentage' => '51.33',
			'species' => 'hsp',
			'common_name' => 'Helicosporidium sp. ',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00403G00080' => array(
			'gene_id' => 'PP00403G00080',
			'e_value' => '6e-21',
			'bit_score' => '98.6',
			'alignment_length' => '118',
			'identity_percentage' => '47.46',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'FC002G03560' => array(
			'gene_id' => 'FC002G03560',
			'e_value' => '1e-20',
			'bit_score' => '102',
			'alignment_length' => '299',
			'identity_percentage' => '29.77',
			'species' => 'fcy',
			'common_name' => 'Fragilariopsis cylindrus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_101061g3' => array(
			'gene_id' => 'Naga_101061g3',
			'e_value' => '4e-13',
			'bit_score' => '73.6',
			'alignment_length' => '91',
			'identity_percentage' => '43.96',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'phs298040' => array(
			'gene_id' => 'phs298040',
			'e_value' => '6e-10',
			'bit_score' => '63.5',
			'alignment_length' => '76',
			'identity_percentage' => '42.11',
			'species' => 'phs',
			'common_name' => 'Phytophtora sojae',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'emh531880' => array(
			'gene_id' => 'emh531880',
			'e_value' => '3e-09',
			'bit_score' => '65.9',
			'alignment_length' => '247',
			'identity_percentage' => '26.72',
			'species' => 'emh',
			'common_name' => 'Emiliania huxleyi',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00392G00160' => array(
			'gene_id' => 'PP00392G00160',
			'e_value' => '6e-09',
			'bit_score' => '59.7',
			'alignment_length' => '58',
			'identity_percentage' => '46.55',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'Naga_101084g2' => array(
			'gene_id' => 'Naga_101084g2',
			'e_value' => '3e-08',
			'bit_score' => '59.3',
			'alignment_length' => '75',
			'identity_percentage' => '40.00',
			'species' => 'nga',
			'common_name' => 'Nannochloropsis gaditana',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES1167G00010' => array(
			'gene_id' => 'ES1167G00010',
			'e_value' => '3e-08',
			'bit_score' => '59.3',
			'alignment_length' => '102',
			'identity_percentage' => '37.25',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'PP00011G01310' => array(
			'gene_id' => 'PP00011G01310',
			'e_value' => '4e-08',
			'bit_score' => '58.5',
			'alignment_length' => '101',
			'identity_percentage' => '31.68',
			'species' => 'ppa',
			'common_name' => 'Physcomitrella patens',
			'gf' => array(
				[maximum depth reached]
			)
		),
		'ES0349G00030' => array(
			'gene_id' => 'ES0349G00030',
			'e_value' => '5e-07',
			'bit_score' => '57.8',
			'alignment_length' => '77',
			'identity_percentage' => '40.26',
			'species' => 'esi',
			'common_name' => 'Ectocarpus siliculosus',
			'gf' => array(
				[maximum depth reached]
			)
		)
	),
	'similarity_hits_species' => array(
		'vca' => array(
			(int) 0 => 'VC00G100720',
			(int) 1 => 'VC00G133790'
		),
		'cre' => array(
			(int) 0 => 'CR12G06740',
			(int) 1 => 'CR13G06830'
		),
		'acg' => array(
			(int) 0 => 'AC00G65230'
		),
		'cvu' => array(
			(int) 0 => 'CV00G44190',
			(int) 1 => 'CV00G54390'
		),
		'prcc4223' => array(
			(int) 0 => 'RCC4223.11g02190',
			(int) 1 => 'RCC4223.195g00050',
			(int) 2 => 'RCC4223.01g07000',
			(int) 3 => 'RCC4223.30g00360'
		),
		'pse3' => array(
			(int) 0 => 'PI00G40630',
			(int) 1 => 'PI00G22860'
		),
		'ppa' => array(
			(int) 0 => 'PP00212G00220',
			(int) 1 => 'PP00042G01290',
			(int) 2 => 'PP00079G00800',
			(int) 3 => 'PP00058G00660',
			(int) 4 => 'PP00081G01010',
			(int) 5 => 'PP00093G00670',
			(int) 6 => 'PP00403G00080',
			(int) 7 => 'PP00392G00160',
			(int) 8 => 'PP00011G01310'
		),
		'osa' => array(
			(int) 0 => 'OS07G46460',
			(int) 1 => 'OS05G48200',
			(int) 2 => 'OS01G48960'
		),
		'ath' => array(
			(int) 0 => 'AT5G04140',
			(int) 1 => 'AT2G41220',
			(int) 2 => 'AT5G53460'
		),
		'atr' => array(
			(int) 0 => 'ATR_00063G00700',
			(int) 1 => 'ATR_00021G02760'
		),
		'ome' => array(
			(int) 0 => 'OM_13G01370'
		),
		'orcc809' => array(
			(int) 0 => 'ORCC809_20G02050'
		),
		'ota' => array(
			(int) 0 => 'OT_14G02150'
		),
		'olu' => array(
			(int) 0 => 'OL20G02060'
		),
		'mpu' => array(
			(int) 0 => 'MP15G01340',
			(int) 1 => 'MP04G02170'
		),
		'bprrcc1105' => array(
			(int) 0 => 'BPRRCC1105_12G01040'
		),
		'mrcc299' => array(
			(int) 0 => 'MRCC299_13G02940',
			(int) 1 => 'MRCC299_04G05480'
		),
		'ccr' => array(
			(int) 0 => 'ccr04000'
		),
		'gsu' => array(
			(int) 0 => 'gsu53380'
		),
		'nga' => array(
			(int) 0 => 'Naga_100005g23',
			(int) 1 => 'Naga_101061g3',
			(int) 2 => 'Naga_101084g2'
		),
		'tps' => array(
			(int) 0 => 'TP17G00640',
			(int) 1 => 'TP13G02310'
		),
		'ptri' => array(
			(int) 0 => 'PTI_01G06310',
			(int) 1 => 'PTI_22G02630'
		),
		'esi' => array(
			(int) 0 => 'ES0000G02150',
			(int) 1 => 'ES0103G00160',
			(int) 2 => 'ES0103G00130',
			(int) 3 => 'ES1167G00010',
			(int) 4 => 'ES0349G00030'
		),
		'fcy' => array(
			(int) 0 => 'FC006G06510',
			(int) 1 => 'FC002G02920',
			(int) 2 => 'FC002G03560'
		),
		'cme' => array(
			(int) 0 => 'CMCG00600'
		),
		'apr' => array(
			(int) 0 => 'AP00G41850',
			(int) 1 => 'AP00G33620'
		),
		'scp' => array(
			(int) 0 => 'SPAPB1E7.07'
		),
		'aan' => array(
			(int) 0 => 'AA0006G04570',
			(int) 1 => 'AA0023G00350'
		),
		'drm' => array(
			(int) 0 => 'FBgn0036663'
		),
		'cnc64a' => array(
			(int) 0 => 'CNC64A_001G04690',
			(int) 1 => 'CNC64A_004G02410'
		),
		'cel' => array(
			(int) 0 => 'WBGene00012326'
		),
		'sac' => array(
			(int) 0 => 'YDL171C'
		),
		'phs' => array(
			(int) 0 => 'phs298160',
			(int) 1 => 'phs298440',
			(int) 2 => 'phs298040'
		),
		'emh' => array(
			(int) 0 => 'emh373530',
			(int) 1 => 'emh357800',
			(int) 2 => 'emh531880'
		),
		'hsp' => array(
			(int) 0 => 'HE0000G02630',
			(int) 1 => 'HE0000G02800'
		)
	),
	'gene_id' => 'VC00G100720',
	'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' => 'VC00G100720',
	'data_type' => 'gene_id',
	'allow_async_use' => true,
	'gene_placeholder' => 'OSCG01550',
	'gf_placeholder' => 'HOM03P017854',
	'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(
	'VC00G100720' => array(
		'gene_id' => 'VC00G100720',
		'e_value' => '0.0',
		'bit_score' => '3199',
		'alignment_length' => '1550',
		'identity_percentage' => '100.00',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CR12G06740' => array(
		'gene_id' => 'CR12G06740',
		'e_value' => '0.0',
		'bit_score' => '2893',
		'alignment_length' => '1553',
		'identity_percentage' => '88.67',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AC00G65230' => array(
		'gene_id' => 'AC00G65230',
		'e_value' => '0.0',
		'bit_score' => '2301',
		'alignment_length' => '1525',
		'identity_percentage' => '71.21',
		'species' => 'acg',
		'common_name' => 'Asterochloris sp. Cgr-DA1pho v2.0',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CV00G44190' => array(
		'gene_id' => 'CV00G44190',
		'e_value' => '0.0',
		'bit_score' => '2267',
		'alignment_length' => '1494',
		'identity_percentage' => '72.29',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.11g02190' => array(
		'gene_id' => 'RCC4223.11g02190',
		'e_value' => '0.0',
		'bit_score' => '2265',
		'alignment_length' => '1536',
		'identity_percentage' => '70.38',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PI00G40630' => array(
		'gene_id' => 'PI00G40630',
		'e_value' => '0.0',
		'bit_score' => '2263',
		'alignment_length' => '1540',
		'identity_percentage' => '70.39',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00212G00220' => array(
		'gene_id' => 'PP00212G00220',
		'e_value' => '0.0',
		'bit_score' => '2050',
		'alignment_length' => '1541',
		'identity_percentage' => '64.44',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OS07G46460' => array(
		'gene_id' => 'OS07G46460',
		'e_value' => '0.0',
		'bit_score' => '2019',
		'alignment_length' => '1528',
		'identity_percentage' => '63.48',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AT5G04140' => array(
		'gene_id' => 'AT5G04140',
		'e_value' => '0.0',
		'bit_score' => '2011',
		'alignment_length' => '1530',
		'identity_percentage' => '63.07',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ATR_00063G00700' => array(
		'gene_id' => 'ATR_00063G00700',
		'e_value' => '0.0',
		'bit_score' => '2003',
		'alignment_length' => '1545',
		'identity_percentage' => '61.94',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AT2G41220' => array(
		'gene_id' => 'AT2G41220',
		'e_value' => '0.0',
		'bit_score' => '2000',
		'alignment_length' => '1542',
		'identity_percentage' => '61.93',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OM_13G01370' => array(
		'gene_id' => 'OM_13G01370',
		'e_value' => '0.0',
		'bit_score' => '1999',
		'alignment_length' => '1540',
		'identity_percentage' => '63.38',
		'species' => 'ome',
		'common_name' => 'Ostreococcus mediterraneus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ORCC809_20G02050' => array(
		'gene_id' => 'ORCC809_20G02050',
		'e_value' => '0.0',
		'bit_score' => '1997',
		'alignment_length' => '1529',
		'identity_percentage' => '64.22',
		'species' => 'orcc809',
		'common_name' => 'Ostreococcus sp RCC809',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OT_14G02150' => array(
		'gene_id' => 'OT_14G02150',
		'e_value' => '0.0',
		'bit_score' => '1996',
		'alignment_length' => '1538',
		'identity_percentage' => '63.85',
		'species' => 'ota',
		'common_name' => 'Ostreococcus tauri',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00042G01290' => array(
		'gene_id' => 'PP00042G01290',
		'e_value' => '0.0',
		'bit_score' => '1994',
		'alignment_length' => '1563',
		'identity_percentage' => '62.44',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OL20G02060' => array(
		'gene_id' => 'OL20G02060',
		'e_value' => '0.0',
		'bit_score' => '1991',
		'alignment_length' => '1529',
		'identity_percentage' => '63.90',
		'species' => 'olu',
		'common_name' => 'Ostreococcus lucimarinus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MP15G01340' => array(
		'gene_id' => 'MP15G01340',
		'e_value' => '0.0',
		'bit_score' => '1952',
		'alignment_length' => '1555',
		'identity_percentage' => '62.77',
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'BPRRCC1105_12G01040' => array(
		'gene_id' => 'BPRRCC1105_12G01040',
		'e_value' => '0.0',
		'bit_score' => '1943',
		'alignment_length' => '1544',
		'identity_percentage' => '61.59',
		'species' => 'bprrcc1105',
		'common_name' => 'Bathycoccus prasinos',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MRCC299_13G02940' => array(
		'gene_id' => 'MRCC299_13G02940',
		'e_value' => '0.0',
		'bit_score' => '1910',
		'alignment_length' => '1558',
		'identity_percentage' => '62.26',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ccr04000' => array(
		'gene_id' => 'ccr04000',
		'e_value' => '0.0',
		'bit_score' => '1701',
		'alignment_length' => '1521',
		'identity_percentage' => '55.10',
		'species' => 'ccr',
		'common_name' => 'Chondrus crispus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'gsu53380' => array(
		'gene_id' => 'gsu53380',
		'e_value' => '0.0',
		'bit_score' => '1648',
		'alignment_length' => '1496',
		'identity_percentage' => '55.08',
		'species' => 'gsu',
		'common_name' => 'Galdieria sulphuraria',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'Naga_100005g23' => array(
		'gene_id' => 'Naga_100005g23',
		'e_value' => '0.0',
		'bit_score' => '1632',
		'alignment_length' => '1555',
		'identity_percentage' => '54.41',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'TP17G00640' => array(
		'gene_id' => 'TP17G00640',
		'e_value' => '0.0',
		'bit_score' => '1630',
		'alignment_length' => '1562',
		'identity_percentage' => '53.52',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PTI_01G06310' => array(
		'gene_id' => 'PTI_01G06310',
		'e_value' => '0.0',
		'bit_score' => '1588',
		'alignment_length' => '1604',
		'identity_percentage' => '52.12',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ES0000G02150' => array(
		'gene_id' => 'ES0000G02150',
		'e_value' => '0.0',
		'bit_score' => '1575',
		'alignment_length' => '1570',
		'identity_percentage' => '52.68',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'FC006G06510' => array(
		'gene_id' => 'FC006G06510',
		'e_value' => '0.0',
		'bit_score' => '1573',
		'alignment_length' => '1614',
		'identity_percentage' => '52.42',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CMCG00600' => array(
		'gene_id' => 'CMCG00600',
		'e_value' => '0.0',
		'bit_score' => '1563',
		'alignment_length' => '1527',
		'identity_percentage' => '53.57',
		'species' => 'cme',
		'common_name' => 'Cyanidioschyzon merolae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AP00G41850' => array(
		'gene_id' => 'AP00G41850',
		'e_value' => '0.0',
		'bit_score' => '1239',
		'alignment_length' => '853',
		'identity_percentage' => '71.40',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'SPAPB1E7.07' => array(
		'gene_id' => 'SPAPB1E7.07',
		'e_value' => '0.0',
		'bit_score' => '1210',
		'alignment_length' => '1554',
		'identity_percentage' => '43.82',
		'species' => 'scp',
		'common_name' => 'Schizosaccharomyces pombe',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AA0006G04570' => array(
		'gene_id' => 'AA0006G04570',
		'e_value' => '0.0',
		'bit_score' => '1183',
		'alignment_length' => '1587',
		'identity_percentage' => '43.92',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OS05G48200' => array(
		'gene_id' => 'OS05G48200',
		'e_value' => '0.0',
		'bit_score' => '1154',
		'alignment_length' => '1569',
		'identity_percentage' => '43.02',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MRCC299_04G05480' => array(
		'gene_id' => 'MRCC299_04G05480',
		'e_value' => '0.0',
		'bit_score' => '1151',
		'alignment_length' => '1552',
		'identity_percentage' => '42.78',
		'species' => 'mrcc299',
		'common_name' => 'Micromonas sp RCC299',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ATR_00021G02760' => array(
		'gene_id' => 'ATR_00021G02760',
		'e_value' => '0.0',
		'bit_score' => '1150',
		'alignment_length' => '1558',
		'identity_percentage' => '42.62',
		'species' => 'atr',
		'common_name' => 'Amborella trichopoda',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'MP04G02170' => array(
		'gene_id' => 'MP04G02170',
		'e_value' => '0.0',
		'bit_score' => '1147',
		'alignment_length' => '1563',
		'identity_percentage' => '42.48',
		'species' => 'mpu',
		'common_name' => 'Micromonas pusilla strain CCMP1545',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.195g00050' => array(
		'gene_id' => 'RCC4223.195g00050',
		'e_value' => '0.0',
		'bit_score' => '1144',
		'alignment_length' => '1517',
		'identity_percentage' => '41.40',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00079G00800' => array(
		'gene_id' => 'PP00079G00800',
		'e_value' => '0.0',
		'bit_score' => '1139',
		'alignment_length' => '1582',
		'identity_percentage' => '43.11',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AT5G53460' => array(
		'gene_id' => 'AT5G53460',
		'e_value' => '0.0',
		'bit_score' => '1139',
		'alignment_length' => '1579',
		'identity_percentage' => '41.67',
		'species' => 'ath',
		'common_name' => 'Arabidopsis thaliana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00058G00660' => array(
		'gene_id' => 'PP00058G00660',
		'e_value' => '0.0',
		'bit_score' => '1133',
		'alignment_length' => '1583',
		'identity_percentage' => '42.83',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00081G01010' => array(
		'gene_id' => 'PP00081G01010',
		'e_value' => '0.0',
		'bit_score' => '1131',
		'alignment_length' => '1552',
		'identity_percentage' => '43.36',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.01g07000' => array(
		'gene_id' => 'RCC4223.01g07000',
		'e_value' => '0.0',
		'bit_score' => '1130',
		'alignment_length' => '1562',
		'identity_percentage' => '42.13',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'OS01G48960' => array(
		'gene_id' => 'OS01G48960',
		'e_value' => '0.0',
		'bit_score' => '1130',
		'alignment_length' => '1574',
		'identity_percentage' => '42.82',
		'species' => 'osa',
		'common_name' => 'Oryza sativa',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'TP13G02310' => array(
		'gene_id' => 'TP13G02310',
		'e_value' => '0.0',
		'bit_score' => '1122',
		'alignment_length' => '1540',
		'identity_percentage' => '42.34',
		'species' => 'tps',
		'common_name' => 'Thalassiosira pseudonana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00093G00670' => array(
		'gene_id' => 'PP00093G00670',
		'e_value' => '0.0',
		'bit_score' => '1120',
		'alignment_length' => '1554',
		'identity_percentage' => '42.66',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PI00G22860' => array(
		'gene_id' => 'PI00G22860',
		'e_value' => '0.0',
		'bit_score' => '1120',
		'alignment_length' => '1563',
		'identity_percentage' => '41.84',
		'species' => 'pse3',
		'common_name' => 'Picochlorum sp. SENEW3 (SE3)',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'FBgn0036663' => array(
		'gene_id' => 'FBgn0036663',
		'e_value' => '0.0',
		'bit_score' => '1120',
		'alignment_length' => '1539',
		'identity_percentage' => '42.88',
		'species' => 'drm',
		'common_name' => 'Drosophila melanogaster',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PTI_22G02630' => array(
		'gene_id' => 'PTI_22G02630',
		'e_value' => '0.0',
		'bit_score' => '1112',
		'alignment_length' => '1545',
		'identity_percentage' => '42.14',
		'species' => 'ptri',
		'common_name' => 'Phaeodactylum tricornutum',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'VC00G133790' => array(
		'gene_id' => 'VC00G133790',
		'e_value' => '0.0',
		'bit_score' => '1110',
		'alignment_length' => '1610',
		'identity_percentage' => '42.73',
		'species' => 'vca',
		'common_name' => 'Volvox carteri',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CNC64A_001G04690' => array(
		'gene_id' => 'CNC64A_001G04690',
		'e_value' => '0.0',
		'bit_score' => '1103',
		'alignment_length' => '1566',
		'identity_percentage' => '42.40',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CV00G54390' => array(
		'gene_id' => 'CV00G54390',
		'e_value' => '0.0',
		'bit_score' => '1101',
		'alignment_length' => '1556',
		'identity_percentage' => '42.80',
		'species' => 'cvu',
		'common_name' => 'Coccomyxa subellipsoidea C-169',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'WBGene00012326' => array(
		'gene_id' => 'WBGene00012326',
		'e_value' => '0.0',
		'bit_score' => '1096',
		'alignment_length' => '1576',
		'identity_percentage' => '42.13',
		'species' => 'cel',
		'common_name' => 'Caenorhabditis elegans',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'YDL171C' => array(
		'gene_id' => 'YDL171C',
		'e_value' => '0.0',
		'bit_score' => '1093',
		'alignment_length' => '1557',
		'identity_percentage' => '41.75',
		'species' => 'sac',
		'common_name' => 'Saccharomyces cerevisiae strain S288C',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'phs298160' => array(
		'gene_id' => 'phs298160',
		'e_value' => '0.0',
		'bit_score' => '1092',
		'alignment_length' => '1545',
		'identity_percentage' => '42.14',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'FC002G02920' => array(
		'gene_id' => 'FC002G02920',
		'e_value' => '0.0',
		'bit_score' => '1089',
		'alignment_length' => '1535',
		'identity_percentage' => '41.89',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AP00G33620' => array(
		'gene_id' => 'AP00G33620',
		'e_value' => '0.0',
		'bit_score' => '1088',
		'alignment_length' => '1566',
		'identity_percentage' => '43.04',
		'species' => 'apr',
		'common_name' => 'Auxenochlorella protothecoides',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'AA0023G00350' => array(
		'gene_id' => 'AA0023G00350',
		'e_value' => '0.0',
		'bit_score' => '1070',
		'alignment_length' => '1594',
		'identity_percentage' => '41.53',
		'species' => 'aan',
		'common_name' => 'Aureococcus anophagefferens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ES0103G00160' => array(
		'gene_id' => 'ES0103G00160',
		'e_value' => '0.0',
		'bit_score' => '986',
		'alignment_length' => '1294',
		'identity_percentage' => '44.90',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'RCC4223.30g00360' => array(
		'gene_id' => 'RCC4223.30g00360',
		'e_value' => '0.0',
		'bit_score' => '966',
		'alignment_length' => '1544',
		'identity_percentage' => '38.47',
		'species' => 'prcc4223',
		'common_name' => 'Picochlorum_RCC4223',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'emh373530' => array(
		'gene_id' => 'emh373530',
		'e_value' => '0.0',
		'bit_score' => '806',
		'alignment_length' => '909',
		'identity_percentage' => '50.06',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CR13G06830' => array(
		'gene_id' => 'CR13G06830',
		'e_value' => '0.0',
		'bit_score' => '805',
		'alignment_length' => '1079',
		'identity_percentage' => '45.13',
		'species' => 'cre',
		'common_name' => 'Chlamydomonas reinhardtii',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CNC64A_004G02410' => array(
		'gene_id' => 'CNC64A_004G02410',
		'e_value' => '0.0',
		'bit_score' => '669',
		'alignment_length' => '623',
		'identity_percentage' => '56.18',
		'species' => 'cnc64a',
		'common_name' => 'Chlorella sp NC64A',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'emh357800' => array(
		'gene_id' => 'emh357800',
		'e_value' => '4e-92',
		'bit_score' => '320',
		'alignment_length' => '652',
		'identity_percentage' => '33.90',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'CNC64A_709G00010' => array(
		'gene_id' => 'CNC64A_709G00010',
		'e_value' => '6e-84',
		'bit_score' => '278',
		'alignment_length' => '172',
		'identity_percentage' => '77.33',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P095573'
		)
	),
	'HE0000G02630' => array(
		'gene_id' => 'HE0000G02630',
		'e_value' => '3e-80',
		'bit_score' => '267',
		'alignment_length' => '157',
		'identity_percentage' => '82.17',
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'phs298440' => array(
		'gene_id' => 'phs298440',
		'e_value' => '3e-60',
		'bit_score' => '218',
		'alignment_length' => '362',
		'identity_percentage' => '39.23',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'ES0103G00130' => array(
		'gene_id' => 'ES0103G00130',
		'e_value' => '9e-50',
		'bit_score' => '186',
		'alignment_length' => '253',
		'identity_percentage' => '39.92',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P074739'
		)
	),
	'HE0000G02800' => array(
		'gene_id' => 'HE0000G02800',
		'e_value' => '4e-42',
		'bit_score' => '159',
		'alignment_length' => '150',
		'identity_percentage' => '51.33',
		'species' => 'hsp',
		'common_name' => 'Helicosporidium sp. ',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P000187'
		)
	),
	'PP00403G00080' => array(
		'gene_id' => 'PP00403G00080',
		'e_value' => '6e-21',
		'bit_score' => '98.6',
		'alignment_length' => '118',
		'identity_percentage' => '47.46',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P115831'
		)
	),
	'FC002G03560' => array(
		'gene_id' => 'FC002G03560',
		'e_value' => '1e-20',
		'bit_score' => '102',
		'alignment_length' => '299',
		'identity_percentage' => '29.77',
		'species' => 'fcy',
		'common_name' => 'Fragilariopsis cylindrus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P039428'
		)
	),
	'Naga_101061g3' => array(
		'gene_id' => 'Naga_101061g3',
		'e_value' => '4e-13',
		'bit_score' => '73.6',
		'alignment_length' => '91',
		'identity_percentage' => '43.96',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P170029'
		)
	),
	'phs298040' => array(
		'gene_id' => 'phs298040',
		'e_value' => '6e-10',
		'bit_score' => '63.5',
		'alignment_length' => '76',
		'identity_percentage' => '42.11',
		'species' => 'phs',
		'common_name' => 'Phytophtora sojae',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P165199'
		)
	),
	'emh531880' => array(
		'gene_id' => 'emh531880',
		'e_value' => '3e-09',
		'bit_score' => '65.9',
		'alignment_length' => '247',
		'identity_percentage' => '26.72',
		'species' => 'emh',
		'common_name' => 'Emiliania huxleyi',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P039428'
		)
	),
	'PP00392G00160' => array(
		'gene_id' => 'PP00392G00160',
		'e_value' => '6e-09',
		'bit_score' => '59.7',
		'alignment_length' => '58',
		'identity_percentage' => '46.55',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P109561'
		)
	),
	'Naga_101084g2' => array(
		'gene_id' => 'Naga_101084g2',
		'e_value' => '3e-08',
		'bit_score' => '59.3',
		'alignment_length' => '75',
		'identity_percentage' => '40.00',
		'species' => 'nga',
		'common_name' => 'Nannochloropsis gaditana',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P074739'
		)
	),
	'ES1167G00010' => array(
		'gene_id' => 'ES1167G00010',
		'e_value' => '3e-08',
		'bit_score' => '59.3',
		'alignment_length' => '102',
		'identity_percentage' => '37.25',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P115753'
		)
	),
	'PP00011G01310' => array(
		'gene_id' => 'PP00011G01310',
		'e_value' => '4e-08',
		'bit_score' => '58.5',
		'alignment_length' => '101',
		'identity_percentage' => '31.68',
		'species' => 'ppa',
		'common_name' => 'Physcomitrella patens',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P181114'
		)
	),
	'ES0349G00030' => array(
		'gene_id' => 'ES0349G00030',
		'e_value' => '5e-07',
		'bit_score' => '57.8',
		'alignment_length' => '77',
		'identity_percentage' => '40.26',
		'species' => 'esi',
		'common_name' => 'Ectocarpus siliculosus',
		'gf' => array(
			'HOMFAM' => 'HOM03P000541',
			'ORTHOFAM' => 'ORTHO03P039428'
		)
	)
)
$similarity_hits_species = array(
	'vca' => array(
		(int) 0 => 'VC00G100720',
		(int) 1 => 'VC00G133790'
	),
	'cre' => array(
		(int) 0 => 'CR12G06740',
		(int) 1 => 'CR13G06830'
	),
	'acg' => array(
		(int) 0 => 'AC00G65230'
	),
	'cvu' => array(
		(int) 0 => 'CV00G44190',
		(int) 1 => 'CV00G54390'
	),
	'prcc4223' => array(
		(int) 0 => 'RCC4223.11g02190',
		(int) 1 => 'RCC4223.195g00050',
		(int) 2 => 'RCC4223.01g07000',
		(int) 3 => 'RCC4223.30g00360'
	),
	'pse3' => array(
		(int) 0 => 'PI00G40630',
		(int) 1 => 'PI00G22860'
	),
	'ppa' => array(
		(int) 0 => 'PP00212G00220',
		(int) 1 => 'PP00042G01290',
		(int) 2 => 'PP00079G00800',
		(int) 3 => 'PP00058G00660',
		(int) 4 => 'PP00081G01010',
		(int) 5 => 'PP00093G00670',
		(int) 6 => 'PP00403G00080',
		(int) 7 => 'PP00392G00160',
		(int) 8 => 'PP00011G01310'
	),
	'osa' => array(
		(int) 0 => 'OS07G46460',
		(int) 1 => 'OS05G48200',
		(int) 2 => 'OS01G48960'
	),
	'ath' => array(
		(int) 0 => 'AT5G04140',
		(int) 1 => 'AT2G41220',
		(int) 2 => 'AT5G53460'
	),
	'atr' => array(
		(int) 0 => 'ATR_00063G00700',
		(int) 1 => 'ATR_00021G02760'
	),
	'ome' => array(
		(int) 0 => 'OM_13G01370'
	),
	'orcc809' => array(
		(int) 0 => 'ORCC809_20G02050'
	),
	'ota' => array(
		(int) 0 => 'OT_14G02150'
	),
	'olu' => array(
		(int) 0 => 'OL20G02060'
	),
	'mpu' => array(
		(int) 0 => 'MP15G01340',
		(int) 1 => 'MP04G02170'
	),
	'bprrcc1105' => array(
		(int) 0 => 'BPRRCC1105_12G01040'
	),
	'mrcc299' => array(
		(int) 0 => 'MRCC299_13G02940',
		(int) 1 => 'MRCC299_04G05480'
	),
	'ccr' => array(
		(int) 0 => 'ccr04000'
	),
	'gsu' => array(
		(int) 0 => 'gsu53380'
	),
	'nga' => array(
		(int) 0 => 'Naga_100005g23',
		(int) 1 => 'Naga_101061g3',
		(int) 2 => 'Naga_101084g2'
	),
	'tps' => array(
		(int) 0 => 'TP17G00640',
		(int) 1 => 'TP13G02310'
	),
	'ptri' => array(
		(int) 0 => 'PTI_01G06310',
		(int) 1 => 'PTI_22G02630'
	),
	'esi' => array(
		(int) 0 => 'ES0000G02150',
		(int) 1 => 'ES0103G00160',
		(int) 2 => 'ES0103G00130',
		(int) 3 => 'ES1167G00010',
		(int) 4 => 'ES0349G00030'
	),
	'fcy' => array(
		(int) 0 => 'FC006G06510',
		(int) 1 => 'FC002G02920',
		(int) 2 => 'FC002G03560'
	),
	'cme' => array(
		(int) 0 => 'CMCG00600'
	),
	'apr' => array(
		(int) 0 => 'AP00G41850',
		(int) 1 => 'AP00G33620'
	),
	'scp' => array(
		(int) 0 => 'SPAPB1E7.07'
	),
	'aan' => array(
		(int) 0 => 'AA0006G04570',
		(int) 1 => 'AA0023G00350'
	),
	'drm' => array(
		(int) 0 => 'FBgn0036663'
	),
	'cnc64a' => array(
		(int) 0 => 'CNC64A_001G04690',
		(int) 1 => 'CNC64A_004G02410'
	),
	'cel' => array(
		(int) 0 => 'WBGene00012326'
	),
	'sac' => array(
		(int) 0 => 'YDL171C'
	),
	'phs' => array(
		(int) 0 => 'phs298160',
		(int) 1 => 'phs298440',
		(int) 2 => 'phs298040'
	),
	'emh' => array(
		(int) 0 => 'emh373530',
		(int) 1 => 'emh357800',
		(int) 2 => 'emh531880'
	),
	'hsp' => array(
		(int) 0 => 'HE0000G02630',
		(int) 1 => 'HE0000G02800'
	)
)
$gene_id = 'VC00G100720'
$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 = 'VC00G100720'
$data_type = 'gene_id'
$allow_async_use = true
$gene_placeholder = 'OSCG01550'
$gf_placeholder = 'HOM03P017854'
$title_for_layout = 'Pico-PLAZA 3.0 : Interactive Phylogenetics Module'
$collapse1 = ''
$collapse2 = 'collapse in'
$similarity_hit = array(
	'gene_id' => 'CNC64A_709G00010',
	'e_value' => '6e-84',
	'bit_score' => '278',
	'alignment_length' => '172',
	'identity_percentage' => '77.33',
	'gf' => array(
		'HOMFAM' => 'HOM03P000541',
		'ORTHOFAM' => 'ORTHO03P095573'
	)
)
$checked = null
$similarity_hit_gene = 'CNC64A_709G00010'
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