SILENT_MODE
BLOCK_FILE jp_Va2JrIS.concise.blc
MAX_NSEQ 702
MAX_INPUT_LEN 704
OUTPUT_FILE jp_Va2JrIS.concise.ps
PORTRAIT
POINTSIZE 8
IDENT_WIDTH 12
X_OFFSET 2
Y_OFFSET 2
DEFINE_FONT 0 Helvetica		DEFAULT 
DEFINE_FONT 1 Helvetica		REL		0.75   
DEFINE_FONT 7 Helvetica		REL		0.6
DEFINE_FONT 3 Helvetica-Bold	DEFAULT    
DEFINE_FONT 4 Times-Bold    	DEFAULT   
DEFINE_FONT 5 Helvetica-BoldOblique	DEFAULT 
#
DEFINE_COLOUR 3  1 0.62 0.67	# Turquiose
DEFINE_COLOUR 4  1 1 0		# Yellow
DEFINE_COLOUR 5  1 0 0		# Red
DEFINE_COLOUR 7  1 0 1		# Purple
DEFINE_COLOUR 8  0 0 1		# Blue
DEFINE_COLOUR 9  0 1 0		# Green
DEFINE_COLOUR 10 0.41 0.64 1.00	# Pale blue 
DEFINE_COLOUR 11 0.41 0.82 0.67	# Pale green 
DEFINE_COLOUR 50 0.69 0.18 0.37	# Pink (helix)
DEFINE_COLOUR 51 1.00 0.89 0.00	# Gold (strand)
NUMBER_INT 10
SETUP
#
# Highlight specific residues.
# Avoid highlighting Lupas 'C' predictions by
# limiting the highlighting to the alignments 
Scol_CHARS	C 1 1 100 691   4
Ccol_CHARS	H ALL    5
Ccol_CHARS	P ALL    8
SURROUND_CHARS LIV   ALL
#
# Replace known structure types with whitespace
SUB_CHARS 1 692 100 701 H SPACE
SUB_CHARS 1 692 100 701 E SPACE
SUB_CHARS 1 692 100 701 - SPACE
STRAND 3 695 9
COLOUR_TEXT_REGION 3 695 9 695 51
STRAND 16 695 23
COLOUR_TEXT_REGION 16 695 23 695 51
STRAND 30 695 37
COLOUR_TEXT_REGION 30 695 37 695 51
STRAND 43 695 45
COLOUR_TEXT_REGION 43 695 45 695 51
STRAND 52 695 55
COLOUR_TEXT_REGION 52 695 55 695 51
STRAND 64 695 71
COLOUR_TEXT_REGION 64 695 71 695 51
STRAND 76 695 79
COLOUR_TEXT_REGION 76 695 79 695 51
STRAND 92 695 94
COLOUR_TEXT_REGION 92 695 94 695 51
STRAND 3 700 9
COLOUR_TEXT_REGION 3 700 9 700 51
STRAND 15 700 23
COLOUR_TEXT_REGION 15 700 23 700 51
STRAND 30 700 37
COLOUR_TEXT_REGION 30 700 37 700 51
STRAND 43 700 45
COLOUR_TEXT_REGION 43 700 45 700 51
STRAND 52 700 55
COLOUR_TEXT_REGION 52 700 55 700 51
STRAND 64 700 71
COLOUR_TEXT_REGION 64 700 71 700 51
STRAND 76 700 79
COLOUR_TEXT_REGION 76 700 79 700 51
STRAND 92 700 94
COLOUR_TEXT_REGION 92 700 94 700 51
STRAND 3 701 8
COLOUR_TEXT_REGION 3 701 8 701 51
STRAND 16 701 23
COLOUR_TEXT_REGION 16 701 23 701 51
STRAND 31 701 37
COLOUR_TEXT_REGION 31 701 37 701 51
STRAND 43 701 45
COLOUR_TEXT_REGION 43 701 45 701 51
STRAND 52 701 55
COLOUR_TEXT_REGION 52 701 55 701 51
STRAND 65 701 71
COLOUR_TEXT_REGION 65 701 71 701 51
STRAND 76 701 79
COLOUR_TEXT_REGION 76 701 79 701 51
STRAND 92 701 94
COLOUR_TEXT_REGION 92 701 94 701 51