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0
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1 %!PS-Adobe-3.0 EPSF-3.0
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2 %%Creator: PS_dot.c,v 1.38 2007/02/02 15:18:13 ivo Exp $, ViennaRNA-2.0.4
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3 %%CreationDate: Mon Jan 12 21:39:30 2015
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4 %%Title: RNA Secondary Structure Plot
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5 %%BoundingBox: 66 210 518 662
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6 %%DocumentFonts: Helvetica
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7 %%Pages: 1
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8 %%EndComments
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9
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10 %Options: -d2
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11 % to switch off outline pairs of sequence comment or
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12 % delete the appropriate line near the end of the file
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13
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14 %%BeginProlog
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15 /RNAplot 100 dict def
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16 RNAplot begin
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17 /fsize 14 def
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18 /outlinecolor {0.2 setgray} bind def
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19 /paircolor {0.2 setgray} bind def
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20 /seqcolor {0 setgray} bind def
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21 /cshow { dup stringwidth pop -2 div fsize -3 div rmoveto show} bind def
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22 /min { 2 copy gt { exch } if pop } bind def
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23 /max { 2 copy lt { exch } if pop } bind def
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24 /arccoords { % i j arccoords
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25 % puts optimal x1 y1 x2 y2 coordinates used in bezier curves from i to j
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26 % onto the stack
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27 dup 3 -1 roll dup 4 -1 roll lt dup dup 5 2 roll {exch} if
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28 dup 3 -1 roll dup 3 -1 roll exch sub 1 sub dup
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29 4 -2 roll 5 -1 roll {exch} if 4 2 roll
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30 sequence length dup 2 div exch 3 1 roll lt
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31 {exch 5 -1 roll pop 4 -2 roll exch 4 2 roll}
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32 { 4 2 roll 5 -1 roll dup 6 1 roll {exch} if
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33 4 -2 roll exch pop dup 3 -1 roll dup 4 1 roll
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34 exch add 4 -1 roll dup 5 1 roll sub 1 sub
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35 5 -1 roll not {4 -2 roll exch 4 2 roll} if
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36 }ifelse
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37 % compute the scalingfactor and prepare (1-sf) and sf*r
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38 2 mul exch cpr 3 1 roll div dup
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39 3 -1 roll mul exch 1 exch sub exch
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40 % compute the coordinates
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41 3 -1 roll 1 sub coor exch get aload pop % get coord for i
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42 4 -1 roll dup 5 1 roll mul 3 -1 roll dup 4 1 roll add exch % calculate y1
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43 4 -1 roll dup 5 1 roll mul 3 -1 roll dup 4 1 roll add exch % calculate x1
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44 5 -1 roll 1 sub coor exch get aload pop % get coord for j
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45 % duplicate j coord
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46 dup 3 -1 roll dup 4 1 roll exch 8 2 roll
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47 6 -1 roll dup 7 1 roll mul 5 -1 roll dup 6 1 roll add exch % calculate y2
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48 6 -1 roll mul 5 -1 roll add exch % calculate x2
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49 6 -2 roll % reorder
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50 } bind def
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51 /drawoutline {
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52 gsave outlinecolor newpath
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53 coor 0 get aload pop 0.8 0 360 arc % draw 5' circle of 1st sequence
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54 currentdict /cutpoint known % check if cutpoint is defined
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55 {coor 0 cutpoint getinterval
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56 {aload pop lineto} forall % draw outline of 1st sequence
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57 coor cutpoint 1 add get aload pop
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58 2 copy moveto 0.8 0 360 arc % draw 5' circle of 2nd sequence
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59 coor cutpoint 1 add coor length cutpoint 1 add sub getinterval
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60 {aload pop lineto} forall} % draw outline of 2nd sequence
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61 {coor {aload pop lineto} forall} % draw outline as a whole
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62 ifelse
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63 stroke grestore
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64 } bind def
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65 /drawpairs {
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66 paircolor
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67 0.7 setlinewidth
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68 [9 3.01] 9 setdash
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69 newpath
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70 pairs {aload pop
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71 currentdict (cpr) known
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72 { exch dup
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73 coor exch 1 sub get aload pop moveto
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74 exch arccoords curveto
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75 }
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76 { coor exch 1 sub get aload pop moveto
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77 coor exch 1 sub get aload pop lineto
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78 }ifelse
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79 } forall
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80 stroke
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81 } bind def
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82 % draw bases
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83 /drawbases {
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84 [] 0 setdash
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85 seqcolor
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86 0
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87 coor {
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88 aload pop moveto
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89 dup sequence exch 1 getinterval cshow
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90 1 add
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91 } forall
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92 pop
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93 } bind def
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94
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95 /init {
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96 /Helvetica findfont fsize scalefont setfont
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97 1 setlinejoin
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98 1 setlinecap
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99 0.8 setlinewidth
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100 72 216 translate
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101 % find the coordinate range
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102 /xmax -1000 def /xmin 10000 def
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103 /ymax -1000 def /ymin 10000 def
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104 coor {
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105 aload pop
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106 dup ymin lt {dup /ymin exch def} if
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107 dup ymax gt {/ymax exch def} {pop} ifelse
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108 dup xmin lt {dup /xmin exch def} if
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109 dup xmax gt {/xmax exch def} {pop} ifelse
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110 } forall
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111 /size {xmax xmin sub ymax ymin sub max} bind def
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112 72 6 mul size div dup scale
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113 size xmin sub xmax sub 2 div size ymin sub ymax sub 2 div
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114 translate
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115 } bind def
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116 end
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117 %%EndProlog
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118 RNAplot begin
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119 % data start here
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120 /sequence (\
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121 AUGCAGGAAAUGCGGGUAGCCGCUGCCGCAAUCGUCUCGGCGAUUGGCGGUAGAGGAAAGUCCAGGCUCGCCCAAGCUGAGAUGCUUGGAGUGUUCGUACCUGGCGCAAGCCAGGGCAAGUGAGGCGCAAGCCUCGCUGACGGCGUGGAAAGGGCUCUCUCUGAGGCCCGAGUACGCUGAAAGUGCCACAGAAACGUAGCUUUUCUGGCGACAGAAAAGAUGGAACGCGGUAAACCCUGCGAGCGAGAAACCCAA\
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122 AUUUGGUAGGGGAACCGUCCUGAAGGAAUCAAACGGAAGGGACGGAUGGUAUCUUCGGAUGCCAUAGAUAGAUGGCUACCGCUCUUGGUGCGAGGGAUACGUCCCGCUUGCAGCACGGGAGAGACAGAACCUGGCUUAUAGCAUUUCCUGCUGGAU\
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123 ) def
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124 /coor [
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337 [-70.55434418 -156.27786255]
|
|
|
338 [-71.35460663 -141.29922485]
|
|
|
339 [-72.15487671 -126.32058716]
|
|
|
340 [-72.95514679 -111.34194946]
|
|
|
341 [-73.75541687 -96.36331177]
|
|
|
342 [-74.55567932 -81.38467407]
|
|
|
343 [-75.35594940 -66.40604401]
|
|
|
344 [-67.97018433 -61.46640778]
|
|
|
345 [-63.16696167 -53.83242416]
|
|
|
346 [-61.87234116 -44.77110291]
|
|
|
347 [-64.41900635 -35.83974838]
|
|
|
348 [-54.65121460 -24.45597458]
|
|
|
349 [-44.88342667 -13.07219887]
|
|
|
350 [-35.11563873 -1.68842399]
|
|
|
351 [-25.34785271 9.69535065]
|
|
|
352 [-15.58006573 21.07912636]
|
|
|
353 [-2.12498283 16.75079727]
|
|
|
354 [12.84111309 20.26181984]
|
|
|
355 [24.76665306 31.82793236]
|
|
|
356 [29.40202522 49.07128906]
|
|
|
357 [24.23037720 67.45729828]
|
|
|
358 [9.49548912 81.48547363]
|
|
|
359 [23.62105751 86.53208923]
|
|
|
360 [37.74662399 91.57870483]
|
|
|
361 [51.87219238 96.62532043]
|
|
|
362 [118.20749664 79.33209991]
|
|
|
363 [133.13385010 77.84761047]
|
|
|
364 [148.06022644 76.36312866]
|
|
|
365 [162.98658752 74.87864685]
|
|
|
366 [177.91294861 73.39415741]
|
|
|
367 [192.83930969 71.90967560]
|
|
|
368 [207.76567078 70.42518616]
|
|
|
369 [206.81819153 65.40071869]
|
|
|
370 [207.11807251 59.85226059]
|
|
|
371 [208.82124329 54.08790207]
|
|
|
372 [212.00886536 48.45391846]
|
|
|
373 [216.67895508 43.31697083]
|
|
|
374 [222.74208069 39.04468155]
|
|
|
375 [230.02160645 35.98537064]
|
|
|
376 [238.25845337 34.44812012]
|
|
|
377 [253.02836609 31.83088112]
|
|
|
378 [267.79827881 29.21364403]
|
|
|
379 [282.56817627 26.59640694]
|
|
|
380 [289.42739868 12.80303001]
|
|
|
381 [302.93545532 5.77555704]
|
|
|
382 [317.81539917 8.02305317]
|
|
|
383 [328.39208984 18.47637749]
|
|
|
384 [343.16198730 15.85914040]
|
|
|
385 [357.93188477 13.24190331]
|
|
|
386 [372.70178223 10.62466621]
|
|
|
387 [387.47171021 8.00742912]
|
|
|
388 [402.24160767 5.39019156]
|
|
|
389 [405.42944336 -14.38106346]
|
|
|
390 [416.64169312 -31.34718895]
|
|
|
391 [434.10409546 -42.36170959]
|
|
|
392 [454.85861206 -45.25786591]
|
|
|
393 [475.26364136 -39.27045441]
|
|
|
394 [491.63278198 -25.21584892]
|
|
|
395 [505.63922119 -30.58424950]
|
|
|
396 [519.64562988 -35.95264816]
|
|
|
397 [533.65209961 -41.32104874]
|
|
|
398 [547.65850830 -46.68944931]
|
|
|
399 [561.66497803 -52.05784988]
|
|
|
400 [575.67138672 -57.42624664]
|
|
|
401 [579.85992432 -73.85271454]
|
|
|
402 [592.90319824 -84.41780853]
|
|
|
403 [609.50823975 -85.09050751]
|
|
|
404 [623.08813477 -75.80330658]
|
|
|
405 [626.86700439 -90.85321808]
|
|
|
406 [638.79187012 -100.78182983]
|
|
|
407 [654.27734375 -101.77139282]
|
|
|
408 [667.36901855 -93.44140625]
|
|
|
409 [673.03277588 -78.99491119]
|
|
|
410 [669.09088135 -63.98688126]
|
|
|
411 [657.05902100 -54.18821335]
|
|
|
412 [641.56365967 -53.36669159]
|
|
|
413 [628.56317139 -61.83821106]
|
|
|
414 [626.42895508 -48.70367050]
|
|
|
415 [618.03155518 -38.24233246]
|
|
|
416 [605.46887207 -33.23781967]
|
|
|
417 [591.96435547 -35.08874130]
|
|
|
418 [581.03979492 -43.41981125]
|
|
|
419 [567.03338623 -38.05141068]
|
|
|
420 [553.02691650 -32.68301010]
|
|
|
421 [539.02050781 -27.31461143]
|
|
|
422 [525.01403809 -21.94621086]
|
|
|
423 [511.00759888 -16.57781219]
|
|
|
424 [497.00115967 -11.20941162]
|
|
|
425 [499.56207275 3.57036328]
|
|
|
426 [514.55816650 3.91346860]
|
|
|
427 [529.55426025 4.25657368]
|
|
|
428 [544.55029297 4.59967899]
|
|
|
429 [559.54638672 4.94278431]
|
|
|
430 [574.54248047 5.28588915]
|
|
|
431 [589.53851318 5.62899446]
|
|
|
432 [604.53460693 5.97209978]
|
|
|
433 [618.65295410 -2.37084746]
|
|
|
434 [632.80242920 5.91910172]
|
|
|
435 [632.42736816 22.31395912]
|
|
|
436 [617.91351318 29.94809914]
|
|
|
437 [604.19152832 20.96817589]
|
|
|
438 [589.19543457 20.62507057]
|
|
|
439 [574.19934082 20.28196526]
|
|
|
440 [559.20324707 19.93885994]
|
|
|
441 [544.20721436 19.59575462]
|
|
|
442 [529.21112061 19.25264931]
|
|
|
443 [514.21502686 18.90954399]
|
|
|
444 [499.21896362 18.56643867]
|
|
|
445 [494.37283325 29.36221313]
|
|
|
446 [487.24349976 38.69115067]
|
|
|
447 [478.24191284 46.08493042]
|
|
|
448 [467.87142944 51.18465424]
|
|
|
449 [456.69982910 53.75814056]
|
|
|
450 [445.32806396 53.71020508]
|
|
|
451 [434.35815430 51.08555603]
|
|
|
452 [424.36123657 46.06418991]
|
|
|
453 [415.84774780 38.94970322]
|
|
|
454 [409.24157715 30.15123749]
|
|
|
455 [404.85882568 20.16009521]
|
|
|
456 [390.08892822 22.77733231]
|
|
|
457 [375.31903076 25.39456940]
|
|
|
458 [360.54913330 28.01180840]
|
|
|
459 [345.77923584 30.62904549]
|
|
|
460 [331.00930786 33.24628067]
|
|
|
461 [324.66851807 46.69739151]
|
|
|
462 [311.46685791 53.92097092]
|
|
|
463 [296.36654663 51.96292496]
|
|
|
464 [285.18539429 41.36631012]
|
|
|
465 [270.41549683 43.98354721]
|
|
|
466 [255.64559937 46.60078430]
|
|
|
467 [240.87568665 49.21802521]
|
|
|
468 [238.95297241 56.46737671]
|
|
|
469 [253.93037415 55.64429092]
|
|
|
470 [259.34143066 69.63430786]
|
|
|
471 [247.70822144 79.10365295]
|
|
|
472 [235.10752869 70.96608734]
|
|
|
473 [233.18479919 78.21543884]
|
|
|
474 [244.71621704 87.80849457]
|
|
|
475 [256.24761963 97.40154266]
|
|
|
476 [267.77902222 106.99459076]
|
|
|
477 [284.02386475 109.23905945]
|
|
|
478 [289.95101929 124.52960968]
|
|
|
479 [279.46316528 137.13662720]
|
|
|
480 [263.34930420 134.09109497]
|
|
|
481 [258.18597412 118.52600098]
|
|
|
482 [246.65457153 108.93295288]
|
|
|
483 [235.12315369 99.33989716]
|
|
|
484 [223.59175110 89.74684906]
|
|
|
485 [209.25015259 85.35155487]
|
|
|
486 [194.32379150 86.83603668]
|
|
|
487 [179.39743042 88.32051849]
|
|
|
488 [164.47106934 89.80500793]
|
|
|
489 [149.54470825 91.28948975]
|
|
|
490 [134.61834717 92.77397919]
|
|
|
491 [119.69197845 94.25846100]
|
|
|
492 [112.70944977 107.53416443]
|
|
|
493 [119.94377136 120.67435455]
|
|
|
494 [126.76836395 126.62311554]
|
|
|
495 [127.18272400 133.94242859]
|
|
|
496 [134.31663513 147.13740540]
|
|
|
497 [141.45056152 160.33238220]
|
|
|
498 [148.58447266 173.52734375]
|
|
|
499 [163.93939209 173.87649536]
|
|
|
500 [177.05422974 181.87004089]
|
|
|
501 [184.40113831 195.35775757]
|
|
|
502 [184.00386047 210.71150208]
|
|
|
503 [175.96923828 223.80122375]
|
|
|
504 [162.45857239 231.10581970]
|
|
|
505 [147.10614014 230.66041565]
|
|
|
506 [134.04167175 222.58480835]
|
|
|
507 [126.77945709 209.05130005]
|
|
|
508 [127.27298737 193.70034790]
|
|
|
509 [135.38949585 180.66125488]
|
|
|
510 [128.25558472 167.46629333]
|
|
|
511 [121.12166595 154.27131653]
|
|
|
512 [113.98775482 141.07635498]
|
|
|
513 [106.80358124 127.90867615]
|
|
|
514 [99.56925964 114.76848602]
|
|
|
515 [92.32728577 116.71883392]
|
|
|
516 [96.22798157 131.20277405]
|
|
|
517 [92.36414337 145.69659424]
|
|
|
518 [81.74404144 135.10346985]
|
|
|
519 [77.84334564 120.61952972]
|
|
|
520 [70.60137177 122.56987762]
|
|
|
521 [70.94448090 137.56594849]
|
|
|
522 [71.28758240 152.56202698]
|
|
|
523 [71.63069153 167.55810547]
|
|
|
524 [71.97379303 182.55418396]
|
|
|
525 [72.31690216 197.55024719]
|
|
|
526 [72.66000366 212.54632568]
|
|
|
527 [73.00311279 227.54240417]
|
|
|
528 [73.34621429 242.53848267]
|
|
|
529 [73.68932343 257.53454590]
|
|
|
530 [74.03242493 272.53063965]
|
|
|
531 [86.86750793 281.25073242]
|
|
|
532 [92.09406281 295.86111450]
|
|
|
533 [87.70237732 310.74374390]
|
|
|
534 [75.38114166 320.17596436]
|
|
|
535 [59.86812592 320.53088379]
|
|
|
536 ] def
|
|
|
537 /pairs [
|
|
|
538 [3 406]
|
|
|
539 [4 405]
|
|
|
540 [5 404]
|
|
|
541 [6 403]
|
|
|
542 [7 402]
|
|
|
543 [8 401]
|
|
|
544 [9 400]
|
|
|
545 [10 399]
|
|
|
546 [11 398]
|
|
|
547 [12 397]
|
|
|
548 [13 396]
|
|
|
549 [14 237]
|
|
|
550 [15 236]
|
|
|
551 [16 235]
|
|
|
552 [17 234]
|
|
|
553 [18 68]
|
|
|
554 [19 67]
|
|
|
555 [20 66]
|
|
|
556 [21 65]
|
|
|
557 [23 53]
|
|
|
558 [24 52]
|
|
|
559 [25 51]
|
|
|
560 [26 50]
|
|
|
561 [27 49]
|
|
|
562 [28 48]
|
|
|
563 [29 46]
|
|
|
564 [30 45]
|
|
|
565 [31 44]
|
|
|
566 [32 43]
|
|
|
567 [33 42]
|
|
|
568 [34 41]
|
|
|
569 [35 40]
|
|
|
570 [55 63]
|
|
|
571 [56 62]
|
|
|
572 [72 89]
|
|
|
573 [73 88]
|
|
|
574 [74 87]
|
|
|
575 [75 86]
|
|
|
576 [76 85]
|
|
|
577 [77 84]
|
|
|
578 [91 228]
|
|
|
579 [92 227]
|
|
|
580 [93 226]
|
|
|
581 [94 225]
|
|
|
582 [95 224]
|
|
|
583 [96 223]
|
|
|
584 [98 198]
|
|
|
585 [99 197]
|
|
|
586 [100 196]
|
|
|
587 [101 114]
|
|
|
588 [102 113]
|
|
|
589 [103 112]
|
|
|
590 [104 111]
|
|
|
591 [105 110]
|
|
|
592 [115 187]
|
|
|
593 [116 186]
|
|
|
594 [117 185]
|
|
|
595 [118 184]
|
|
|
596 [119 138]
|
|
|
597 [120 137]
|
|
|
598 [121 136]
|
|
|
599 [122 135]
|
|
|
600 [123 134]
|
|
|
601 [124 133]
|
|
|
602 [125 132]
|
|
|
603 [126 131]
|
|
|
604 [141 179]
|
|
|
605 [142 178]
|
|
|
606 [143 177]
|
|
|
607 [144 176]
|
|
|
608 [145 175]
|
|
|
609 [146 174]
|
|
|
610 [147 173]
|
|
|
611 [152 169]
|
|
|
612 [153 168]
|
|
|
613 [154 167]
|
|
|
614 [155 166]
|
|
|
615 [157 165]
|
|
|
616 [158 164]
|
|
|
617 [159 163]
|
|
|
618 [200 219]
|
|
|
619 [201 218]
|
|
|
620 [202 217]
|
|
|
621 [203 216]
|
|
|
622 [204 215]
|
|
|
623 [205 214]
|
|
|
624 [206 213]
|
|
|
625 [207 212]
|
|
|
626 [238 367]
|
|
|
627 [239 366]
|
|
|
628 [240 365]
|
|
|
629 [241 364]
|
|
|
630 [242 363]
|
|
|
631 [243 362]
|
|
|
632 [244 361]
|
|
|
633 [252 343]
|
|
|
634 [253 342]
|
|
|
635 [254 341]
|
|
|
636 [255 340]
|
|
|
637 [259 336]
|
|
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638 [260 335]
|
|
|
639 [261 334]
|
|
|
640 [262 333]
|
|
|
641 [263 332]
|
|
|
642 [264 331]
|
|
|
643 [270 300]
|
|
|
644 [271 299]
|
|
|
645 [272 298]
|
|
|
646 [273 297]
|
|
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647 [274 296]
|
|
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648 [275 295]
|
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649 [276 294]
|
|
|
650 [280 289]
|
|
|
651 [301 320]
|
|
|
652 [302 319]
|
|
|
653 [303 318]
|
|
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654 [304 317]
|
|
|
655 [305 316]
|
|
|
656 [306 315]
|
|
|
657 [307 314]
|
|
|
658 [308 313]
|
|
|
659 [349 360]
|
|
|
660 [350 359]
|
|
|
661 [351 358]
|
|
|
662 [352 357]
|
|
|
663 [368 390]
|
|
|
664 [369 389]
|
|
|
665 [371 388]
|
|
|
666 [372 387]
|
|
|
667 [373 386]
|
|
|
668 [374 385]
|
|
|
669 ] def
|
|
|
670
|
|
|
671 init
|
|
|
672
|
|
|
673 % switch off outline pairs or bases by removing these lines
|
|
|
674 drawoutline
|
|
|
675 drawpairs
|
|
|
676 drawbases
|
|
|
677 % show it
|
|
|
678 showpage
|
|
|
679 end
|
|
|
680 %%EOF
|
