diff test-data/refseq63m/ncRNA/trnY.cm @ 0:dd589aa77943 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mitos commit 791f28c8a7194fdd1ecec05ad166932d461899b2"
author iuc
date Fri, 27 Mar 2020 17:53:42 -0400
parents
children
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/refseq63m/ncRNA/trnY.cm	Fri Mar 27 17:53:42 2020 -0400
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+INFERNAL1/a [1.1.2 | July 2016]
+NAME     trnY
+STATES   224
+NODES    59
+CLEN     70
+W        171
+ALPH     RNA
+RF       no
+CONS     yes
+MAP      yes
+DATE     Wed Jul 11 21:03:42 2018
+COM      [1] /work/berntm/progz/infernal-1.1.2/src//cmbuild -F metazoa/cleaned/trnY.cm metazoa/cleaned/trnY.stk
+COM      [2] /work/berntm/progz/infernal-1.1.2/src//cmcalibrate --cpu 8 metazoa/cleaned/trnY.cm
+PBEGIN   0.05
+PEND     0.05
+WBETA    1e-07
+QDBBETA1 1e-07
+QDBBETA2 1e-15
+N2OMEGA  1.52588e-05
+N3OMEGA  1.52588e-05
+ELSELF   -0.08926734
+NSEQ     3596
+EFFN     23.577213
+CKSUM    2475394320
+NULL     0.000  0.000  0.000  0.000 
+EFP7GF   -16.7615 0.72134
+ECMLC    0.65949    -4.52240     3.88423     1600000      306877  0.003910
+ECMGC    0.38382   -13.35512     0.28299     1600000       75065  0.005329
+ECMLI    0.57047    -3.82037     5.52297     1600000      247755  0.004843
+ECMGI    0.41384    -8.89743     3.42146     1600000       65482  0.006109
+CM
+                                             [ ROOT    0 ]      -      - - - - -
+     S     0    -1 0     1     4     0     1   171   297  -9.597 -10.843  -0.012  -7.274                 
+    IL     1     1 2     1     4     2    20   172   298  -2.817  -4.319  -0.613  -2.698                  0.000  0.000  0.000  0.000 
+    IR     2     2 3     2     3     2    22   173   299  -1.925  -0.554  -4.164                          0.000  0.000  0.000  0.000 
+                                             [ MATR    1 ]      -    125 - A - -
+    MR     3     2 3     5     5     2    23   172   298  -9.674  -0.013  -9.489  -9.435  -7.586          1.690 -1.983 -1.883 -2.008 
+     D     4     2 3     5     5     0    16   169   295  -5.356  -0.711  -2.951  -4.413  -2.408         
+    IR     5     5 3     5     5     2    20   171   298  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP    2 ]      1    124 g c - -
+    MP     6     5 3    10     6     4    24   171   297 -10.844 -10.783  -0.027  -6.028  -9.577  -9.966 -2.129 -3.045 -2.673  1.922 -4.456 -4.287 -0.295 -4.434 -3.515  2.793 -4.195  0.545  0.627 -3.418 -1.216 -2.760 
+    ML     7     5 3    10     6     1    18   168   294  -6.255  -6.601  -1.303  -1.010  -6.451  -3.981  0.385 -0.416 -0.139  0.051 
+    MR     8     5 3    10     6     1    17   168   294  -6.999  -5.728  -1.637  -5.706  -0.840  -3.757  0.349 -0.379 -0.213  0.131 
+     D     9     5 3    10     6     0    12   162   288  -9.333  -8.031  -3.828  -4.510  -4.528  -0.257 
+    IL    10    10 5    10     6     2    19   170   296  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR    11    11 6    11     5     2    20   169   296  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP    3 ]      2    123 g c - -
+    MP    12    11 6    16     6     4    23   169   295 -10.823 -10.762  -0.008  -9.085  -9.399 -10.001 -4.970 -3.541 -4.378  1.762 -5.896 -5.391 -0.091 -5.343 -4.951  2.940 -5.476  1.318 -0.561 -4.347 -2.125 -1.942 
+    ML    13    11 6    16     6     1    18   166   292  -6.946  -7.292  -1.839  -0.600  -7.142  -4.672  0.047 -0.073 -0.744  0.505 
+    MR    14    11 6    16     6     1    17   166   292  -7.000  -5.729  -1.637  -5.707  -0.819  -3.920  0.348 -0.379 -0.214  0.133 
+     D    15    11 6    16     6     0    12   160   286  -9.358  -8.056  -3.853  -4.535  -4.552  -0.252 
+    IL    16    16 5    16     6     1    19   168   294  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR    17    17 6    17     5     2    19   167   294  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP    4 ]      3    122 U A - -
+    MP    18    17 6    22     6     3    21   167   293  -7.115  -6.676  -0.050  -8.632  -8.990  -6.311 -3.679 -4.388 -4.552  0.265 -3.395 -5.399  1.593 -4.391 -3.918  0.038 -5.040 -2.055  3.104 -3.832  0.313 -2.521 
+    ML    19    17 6    22     6     1    17   164   290  -6.921  -7.267  -1.202  -0.990  -7.117  -4.646 -0.045  0.061 -0.781  0.491 
+    MR    20    17 6    22     6     1    17   164   290  -7.020  -5.749  -1.658  -5.727  -0.804  -3.941  0.315 -0.372 -0.251  0.193 
+     D    21    17 6    22     6     0    12   159   285  -9.366  -8.065  -3.862  -4.544  -4.561  -0.250 
+    IL    22    22 5    22     6     1    19   166   292  -2.860  -3.123  -0.593  -4.778  -5.554  -5.215  0.000  0.000  0.000  0.000 
+    IR    23    23 6    23     5     2    19   166   292  -2.647  -0.409  -6.158  -4.326  -5.432          0.000  0.000  0.000  0.000 
+                                             [ MATP    5 ]      5    120 a u - -
+    MP    24    23 6    28     6     4    21   165   291  -7.063 -10.752  -0.022  -8.331  -8.729  -9.041 -4.575 -3.285 -4.560  2.942 -4.992 -5.234  0.206 -4.790 -4.843  2.046 -5.204 -0.805  0.627 -4.002 -1.321 -3.225 
+    ML    25    23 6    28     6     1    16   162   288  -6.688  -7.034  -1.531  -0.837  -6.884  -3.869  0.011  0.173 -0.654  0.298 
+    MR    26    23 6    28     6     1    16   162   288  -7.065  -5.794  -1.693  -5.772  -0.776  -3.986  0.352 -0.253 -0.334  0.125 
+     D    27    23 6    28     6     0    12   157   283  -9.975  -8.673  -4.470  -5.152  -5.170  -0.159 
+    IL    28    28 5    28     6     1    18   164   290  -2.868  -3.131  -0.589  -4.786  -5.562  -5.223  0.000  0.000  0.000  0.000 
+    IR    29    29 6    29     5     1    18   164   290  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP    6 ]      7    119 a u - -
+    MP    30    29 6    34     6     4    19   163   289  -6.963 -10.749  -0.018  -9.525  -9.461 -10.200 -0.850 -2.943 -3.372  2.671 -3.659 -4.281  0.041 -3.742 -3.279  1.908 -3.838  0.251  0.725 -3.410 -0.809 -2.465 
+    ML    31    29 6    34     6     1    16   161   287  -6.668  -7.014  -1.460  -0.829  -6.864  -4.393  0.178  0.083 -0.622  0.213 
+    MR    32    29 6    34     6     1    15   160   286  -7.125  -5.854  -1.551  -5.832  -0.846  -4.046  0.244 -0.289 -0.288  0.236 
+     D    33    29 6    34     6     0    11   156   282 -10.045  -8.743  -4.540  -5.223  -5.240  -0.151 
+    IL    34    34 5    34     6     1    17   162   288  -2.888  -3.151  -0.579  -4.806  -5.582  -5.242  0.000  0.000  0.000  0.000 
+    IR    35    35 6    35     5     1    17   162   288  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP    7 ]      9    118 g c - -
+    MP    36    35 6    40     6     4    17   161   287  -6.918 -10.753  -0.019  -9.529  -8.865 -10.204 -4.423 -3.052 -3.551  2.337 -5.337 -5.078 -0.562 -5.149 -2.432  2.820 -4.495 -0.179  0.096 -4.165 -1.092 -2.594 
+    ML    37    35 6    40     6     1    14   159   285  -6.576  -6.922  -1.581  -0.827  -6.772  -3.758  0.701 -0.613 -0.446 -0.019 
+    MR    38    35 6    40     6     1    14   159   285  -7.072  -5.801  -1.507  -5.779  -0.913  -3.766  0.240 -0.364 -0.336  0.321 
+     D    39    35 6    40     6     0    11   156   282 -10.045  -8.743  -4.388  -5.223  -5.240  -0.159 
+    IL    40    40 5    40     6     1    15   160   286  -2.898  -3.161  -0.574  -4.816  -5.592  -5.252  0.000  0.000  0.000  0.000 
+    IR    41    41 6    41     5     1    15   160   286  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP    8 ]     11    117 a u - -
+    MP    42    41 6    46     4     3    15   159   285  -9.742  -6.212  -0.029  -7.614                 -4.347 -3.549 -4.310  2.820 -4.678 -5.123 -0.619 -3.902 -4.693  2.138 -4.597  0.326  0.792 -4.391 -2.333 -1.967 
+    ML    43    41 6    46     4     1    13   158   284  -3.966  -4.149  -0.427  -2.878                  0.797 -0.685 -0.407 -0.175 
+    MR    44    41 6    46     4     1    12   157   283  -4.873  -3.902  -1.769  -0.724                  0.534 -0.500 -0.210 -0.029 
+     D    45    41 6    46     4     0    11   155   281  -5.547  -5.229  -3.096  -0.260                 
+    IL    46    46 5    46     4     1    14   158   285  -1.686  -2.369  -1.117  -4.855                  0.000  0.000  0.000  0.000 
+    IR    47    47 6    47     3     1    14   158   284  -1.689  -0.639  -4.389                          0.000  0.000  0.000  0.000 
+                                             [ MATL    9 ]     12      - U - - -
+    ML    48    47 6    50     3     2    13   157   283 -10.674  -0.003  -9.328                         -2.331 -2.912 -4.161  1.853 
+     D    49    47 6    50     3     0    11   155   281  -7.523  -2.476  -0.295                         
+    IL    50    50 3    50     3     1    13   157   283  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   10 ]     13      - G - - -
+    ML    51    50 3    53     2     1    12   156   282 -11.296  -0.001                                 -0.272 -3.015  1.555 -3.184 
+     D    52    50 3    53     2     0    11   155   281  -8.562  -0.004                                 
+    IL    53    53 3    53     2     1    12   156   282  -1.823  -0.479                                  0.000  0.000  0.000  0.000 
+                                             [ BIF    11 ]      -      - - - - -
+     B    54    53 3   121    55     0    11   155   281                                                 
+                                             [ BEGR   41 ]      -      - - - - -
+     S    55    54 1    56     3     0     0   121   247  -2.619  -0.259  -9.364                         
+    IL    56    56 2    56     3     1     1   128   254  -0.292  -2.473  -8.248                          0.000  0.000  0.000  0.000 
+                                             [ MATL   42 ]     77      - u - - -
+    ML    57    56 2    59     3     1     1   119   245 -10.710  -0.003  -9.364                          0.377 -1.600 -0.561  0.761 
+     D    58    56 2    59     3     0     0   116   242  -6.174  -1.687  -0.566                         
+    IL    59    59 3    59     3     1     1   119   245  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   43 ]     78      - u - - -
+    ML    60    59 3    62     3     1     1   118   244 -10.710  -0.024  -5.982                          0.038 -1.217 -0.181  0.733 
+     D    61    59 3    62     3     0     0   115   241  -6.174  -1.687  -0.566                         
+    IL    62    62 3    62     3     1     1   118   244  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   44 ]     79      - A - - -
+    ML    63    62 3    65     3     1     1   117   243 -10.689  -0.003  -9.343                          1.685 -2.610 -2.371 -1.230 
+     D    64    62 3    65     3     0     0   113   239  -7.090  -2.603  -0.272                         
+    IL    65    65 3    65     3     1     1   117   243  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   45 ]     80      - c - - -
+    ML    66    65 3    68     5     1     1   116   242  -6.774  -0.146  -9.236  -9.681  -3.573         -0.818  0.603 -0.882  0.456 
+     D    67    65 3    68     5     0     0   113   239  -5.544  -1.287  -4.805  -1.761  -2.071         
+    IL    68    68 3    68     5     1     1   116   242  -2.586  -0.429  -4.264  -6.097  -5.370          0.000  0.000  0.000  0.000 
+                                             [ MATP   46 ]     82    115 G C - -
+    MP    69    68 3    73     6     2     2   115   241 -10.729 -10.668  -0.007  -9.445  -9.725 -10.120 -5.146 -3.790 -4.998  2.491 -6.177 -5.689 -1.262 -4.380 -2.405  3.051 -5.642 -0.595 -1.517 -4.924 -3.264 -3.295 
+    ML    70    68 3    73     6     1     1   113   239  -6.263  -6.609  -1.291  -1.018  -6.459  -3.989  0.397 -0.447 -0.086  0.011 
+    MR    71    68 3    73     6     1     1   112   238  -7.313  -6.042  -1.950  -6.020  -0.619  -4.234  0.266  0.069 -0.575  0.107 
+     D    72    68 3    73     6     0     0   106   232 -11.417 -10.115  -5.912  -6.594  -6.612  -0.057 
+    IL    73    73 5    73     6     1     1   114   240  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR    74    74 6    74     5     1     1   114   240  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   47 ]     83    114 g c - -
+    MP    75    74 6    79     6     2     2   113   239  -7.076 -10.669  -0.033  -8.935  -9.028  -6.545 -4.867 -2.079 -4.696  2.172 -5.776 -5.298 -0.340 -5.374 -5.123  2.864 -5.379  0.475 -0.387 -4.557 -1.906 -0.911 
+    ML    76    74 6    79     6     1     1   111   237  -6.250  -6.596  -1.310  -1.005  -6.446  -3.975  0.368 -0.385 -0.191  0.094 
+    MR    77    74 6    79     6     1     1   110   236  -7.313  -6.042  -1.950  -6.020  -0.619  -4.234  0.010  0.196 -0.680  0.291 
+     D    78    74 6    79     6     0     0   105   231 -11.417 -10.115  -5.912  -6.594  -6.612  -0.057 
+    IL    79    79 5    79     6     1     1   112   238  -2.850  -3.113  -0.599  -4.768  -5.544  -5.204  0.000  0.000  0.000  0.000 
+    IR    80    80 6    80     5     1     1   112   238  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   48 ]     85    113 g c - -
+    MP    81    80 6    85     6     2     2   111   237 -10.713 -10.653  -0.079  -7.443  -4.907  -6.260 -4.093 -2.352 -4.346  2.542 -5.039 -5.012 -0.095 -4.584 -3.473  2.557 -5.017 -0.017 -0.069 -1.000 -2.249 -2.487 
+    ML    82    80 6    85     6     1     1   109   235  -6.286  -6.632  -1.259  -1.040  -6.481  -4.011  0.366 -0.353 -0.159  0.046 
+    MR    83    80 6    85     6     1     1   108   234  -7.343  -6.071  -1.980  -6.050  -0.603  -4.263  0.123 -0.577  0.227  0.097 
+     D    84    80 6    85     6     0     0   105   231 -11.553 -10.252  -6.049  -6.731  -0.816  -1.299 
+    IL    85    85 5    85     6     1     1   110   237  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR    86    86 6    86     5     1     1   110   236  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   49 ]     86    112 g c - -
+    MP    87    86 6    91     6     2     2   109   235 -10.642 -10.582  -0.047  -5.928  -6.200 -10.033 -2.125 -2.631 -2.732  1.821 -1.804 -3.571  0.662 -2.930 -1.945  2.413 -2.977 -0.521  1.045 -1.730 -0.672 -1.192 
+    ML    88    86 6    91     6     1     1   108   234  -6.481  -6.827  -1.330  -1.202  -3.782  -3.739  0.317 -0.498 -0.039  0.101 
+    MR    89    86 6    91     6     1     1   106   232  -9.180  -7.909  -3.370  -7.888  -0.187  -6.101 -0.149 -0.984 -1.413  1.149 
+     D    90    86 6    91     6     0     0   103   230 -10.695  -9.393  -5.190  -5.872  -4.233  -0.152 
+    IL    91    91 5    91     6     1     1   109   235  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR    92    92 6    92     5     1     1   108   234  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   50 ]     87    111 g c - -
+    MP    93    92 6    97     4     2     2   107   234  -9.486  -9.693  -0.288  -2.485                 -0.787 -0.677 -2.333  1.104 -2.058 -2.773  0.718 -2.465 -1.805  2.381 -1.905 -0.695  0.948 -2.246 -0.201 -0.243 
+    ML    94    92 6    97     4     1     1   106   233  -4.281  -4.463  -0.535  -2.230                 -0.149 -0.500 -0.771  0.852 
+    MR    95    92 6    97     4     1     1   104   231  -7.300  -6.329  -2.207  -0.387                 -0.035 -0.056  0.306 -0.276 
+     D    96    92 6    97     4     0     0   103   229  -6.111  -5.792  -3.359  -0.201                 
+    IL    97    97 5    97     4     1     1   108   234  -1.686  -2.369  -1.117  -4.855                  0.000  0.000  0.000  0.000 
+    IR    98    98 6    98     3     1     1   107   233  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   51 ]     88      - U - - -
+    ML    99    98 6   101     3     1     1   106   232 -10.218  -0.059  -4.673                         -1.636 -2.066 -2.442  1.703 
+     D   100    98 6   101     3     0     0   102   229 -10.418  -2.920  -0.206                         
+    IL   101   101 3   101     3     1     1   106   233  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   52 ]     89      - U - - -
+    ML   102   101 3   104     3     1     1   105   231 -10.236  -0.381  -2.112                         -0.414 -1.958 -1.820  1.438 
+     D   103   101 3   104     3     0     0   102   228 -10.374  -1.326  -0.736                         
+    IL   104   104 3   104     3     1     1   106   232  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   53 ]     90      - u - - -
+    ML   105   104 3   107     3     1     1   105   231 -10.128  -0.183  -3.079                         -0.180  0.332 -0.771  0.347 
+     D   106   104 3   107     3     0     0    99   225 -10.607  -4.562  -0.063                         
+    IL   107   107 3   107     3     1     1   106   232  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   54 ]     91      - a - - -
+    ML   108   107 3   110     3     1     1   105   231  -2.147  -0.379  -7.549                          0.833 -0.519 -0.200 -0.621 
+     D   109   107 3   110     3     0     0    98   224  -3.290  -3.821  -0.274                         
+    IL   110   110 3   110     3     1     1   114   240  -0.211  -2.944  -7.382                          0.000  0.000  0.000  0.000 
+                                             [ MATL   55 ]    108      - A - - -
+    ML   111   110 3   113     3     1     1    13    32 -10.109  -0.008  -7.682                          1.629 -1.844 -2.218 -1.271 
+     D   112   110 3   113     3     0     0    12    30 -10.643  -1.392  -0.693                         
+    IL   113   113 3   113     3     1     1    19    37  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   56 ]    109      - a - - -
+    ML   114   113 3   116     3     1     1    11    30 -10.367  -0.011  -7.265                          0.407 -0.964  0.181  0.040 
+     D   115   113 3   116     3     0     0    11    29  -9.994  -1.139  -0.876                         
+    IL   116   116 3   116     3     1     1    18    36  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   57 ]    110      - U - - -
+    ML   117   116 3   119     2     1     1     1     1       *   0.000                                 -0.302 -0.423 -1.405  1.046 
+     D   118   116 3   119     2     0     0     0     0       *   0.000                                 
+    IL   119   119 3   119     2     1     1    13    28  -1.823  -0.479                                  0.000  0.000  0.000  0.000 
+                                             [ END    58 ]      -      - - - - -
+     E   120   119 3    -1     0     0     0     0     0                                                 
+                                             [ BEGL   12 ]      -      - - - - -
+     S   121    54 1   122     1     0     1    98   184   0.000                                         
+                                             [ BIF    13 ]      -      - - - - -
+     B   122   121 1   123   167     0     1    98   184                                                 
+                                             [ BEGL   14 ]      -      - - - - -
+     S   123   122 1   124     4     0     0    80   166  -0.061  -8.871  -5.249  -6.240                 
+                                             [ MATP   15 ]     14     43 G C - -
+    MP   124   123 1   128     6     2     2    81   167  -7.048  -7.204  -0.033  -9.230  -9.799  -7.562 -3.632 -3.457 -4.783  0.972 -5.222 -5.172 -0.809 -4.790 -5.125  3.329 -5.467  0.428 -0.872 -4.593 -2.829 -0.011 
+    ML   125   123 1   128     6     1     1    78   164  -6.250  -6.596  -1.310  -1.005  -6.446  -3.975  0.368 -0.385 -0.191  0.094 
+    MR   126   123 1   128     6     1     1    76   163  -7.857  -6.586  -2.240  -6.564  -1.061  -1.817  0.942 -0.793 -0.785 -0.118 
+     D   127   123 1   128     6     0     0    73   159  -9.715  -8.413  -4.210  -4.892  -4.909  -0.193 
+    IL   128   128 5   128     6     1     1    80   166  -2.869  -3.132  -0.589  -4.787  -5.563  -5.224  0.000  0.000  0.000  0.000 
+    IR   129   129 6   129     5     1     1    79   166  -2.571  -0.434  -6.083  -4.250  -5.356          0.000  0.000  0.000  0.000 
+                                             [ MATP   16 ]     16     41 C G - -
+    MP   130   129 6   134     6     2     2    79   165 -10.799 -10.738  -0.010  -9.515  -8.279 -10.189 -6.287 -6.127 -6.069 -2.032 -4.221 -6.610  3.640 -5.491 -6.015 -0.282 -6.384 -3.831  0.616 -6.368 -0.866 -2.747 
+    ML   131   129 6   134     6     1     1    76   162  -6.269  -6.615  -1.329  -1.024  -6.465  -3.725  0.342 -0.305 -0.247  0.111 
+    MR   132   129 6   134     6     1     1    75   161  -7.380  -6.109  -1.552  -6.087  -0.839  -3.953  0.539 -0.677 -0.015 -0.102 
+     D   133   129 6   134     6     0     0    71   157 -10.366  -9.064  -2.152  -5.543  -5.561  -0.455 
+    IL   134   134 5   134     6     1     1    78   164  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR   135   135 6   135     5     1     1    77   163  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   17 ]     17     40 u a - -
+    MP   136   135 6   140     6     2     2    77   163 -10.813 -10.752  -0.018  -7.620  -7.506 -10.204 -4.380 -4.334 -3.671  1.428 -0.733 -5.324  1.938 -4.353 -4.440 -0.296 -4.979 -2.302  2.390 -4.643  1.099 -3.280 
+    ML   137   135 6   140     6     1     1    73   160  -6.250  -6.596  -1.310  -1.005  -6.446  -3.975  0.368 -0.385 -0.191  0.094 
+    MR   138   135 6   140     6     1     1    72   158  -7.308  -6.037  -1.728  -6.015  -0.718  -4.229  0.449 -0.488 -0.478  0.268 
+     D   139   135 6   140     6     0     0    66   152 -10.091  -8.790  -4.587  -4.521  -5.286  -0.175 
+    IL   140   140 5   140     6     1     1    75   162  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR   141   141 6   141     5     1     1    75   161  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   18 ]     18     39 G A - -
+    MP   142   141 6   146     4     2     2    75   161  -2.862  -1.810  -0.807  -7.492                 -3.748 -4.302 -4.409 -0.336 -3.497 -5.236  0.909 -4.348  3.076 -0.499 -2.776 -1.215  1.190 -4.574 -0.474 -2.085 
+    ML   143   141 6   146     4     1     1    70   156  -3.949  -4.132  -0.433  -2.861                  0.676 -0.594 -0.387 -0.036 
+    MR   144   141 6   146     4     1     1    66   152  -5.312  -4.341  -2.208  -0.496                  0.234 -0.013 -0.633  0.248 
+     D   145   141 6   146     4     0     0    64   150  -5.537  -5.218  -2.915  -0.288                 
+    IL   146   146 5   146     4     1     1    82   168  -0.309  -3.234  -3.558  -9.490                  0.000  0.000  0.000  0.000 
+    IR   147   147 6   147     3     1     1    18    37  -2.270  -0.356  -6.430                          0.000  0.000  0.000  0.000 
+                                             [ MATL   19 ]     30      - A - - -
+    ML   148   147 6   150     3     1     1    17    35 -10.657  -0.008  -7.618                          1.918 -4.224 -3.619 -3.528 
+     D   149   147 6   150     3     0     0    16    35  -7.881  -2.847  -0.223                         
+    IL   150   150 3   150     3     1     1    21    40  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   20 ]     31      - G - - -
+    ML   151   150 3   153     3     1     1    15    34 -10.655  -0.014  -6.774                         -0.066 -2.411  1.026 -0.286 
+     D   152   150 3   153     3     0     0    15    34  -7.910  -1.456  -0.663                         
+    IL   153   153 3   153     3     1     1    20    39  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   21 ]     32      - u - - -
+    ML   154   153 3   156     3     1     1    14    33 -10.666  -0.290  -2.463                          0.022 -1.327 -0.417  0.877 
+     D   155   153 3   156     3     0     0    14    33  -7.700  -2.386  -0.315                         
+    IL   156   156 3   156     3     1     1    19    38  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   22 ]     33      - g - - -
+    ML   157   156 3   159     3     1     1    13    31 -10.387  -0.228  -2.782                          0.166 -1.502  0.635 -0.041 
+     D   158   156 3   159     3     0     0    12    30  -9.924  -5.339  -0.038                         
+    IL   159   159 3   159     3     1     1    18    37  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   23 ]     34      - u - - -
+    ML   160   159 3   162     3     1     1    12    30 -10.164  -0.188  -3.046                         -0.235 -1.368 -0.138  0.891 
+     D   161   159 3   162     3     0     0    10    29 -10.535  -5.734  -0.028                         
+    IL   162   162 3   162     3     1     1    18    36  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   24 ]     35      - U - - -
+    ML   163   162 3   165     2     1     1     1     1       *   0.000                                 -0.466 -0.683 -1.782  1.240 
+     D   164   162 3   165     2     0     0     0     0       *   0.000                                 
+    IL   165   165 3   165     2     1     1    13    28  -1.823  -0.479                                  0.000  0.000  0.000  0.000 
+                                             [ END    25 ]      -      - - - - -
+     E   166   165 3    -1     0     0     0     0     0                                                 
+                                             [ BEGR   26 ]      -      - - - - -
+     S   167   122 1   168     3     0     0    31    49 -10.710  -0.003  -9.364                         
+    IL   168   168 2   168     3     1     1    35    54  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   27 ]     44      - G - - -
+    ML   169   168 2   171     5     1     1    31    49  -9.674  -0.112  -5.040  -4.589  -9.587          0.172 -2.725  1.334 -2.314 
+     D   170   168 2   171     5     0     0    29    48  -4.959  -0.803  -4.221  -2.596  -2.508         
+    IL   171   171 3   171     5     1     1    31    50  -2.408  -0.496  -4.087  -5.920  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   28 ]     45     63 u a - -
+    MP   172   171 3   176     6     2     2    30    48 -10.762 -10.701  -0.007  -9.478  -9.758 -10.153 -2.211 -2.423 -2.514  1.477 -0.774 -3.403  0.944 -2.820 -0.519  0.884 -3.228  1.138  1.652 -2.598 -0.124 -0.287 
+    ML   173   171 3   176     6     1     1    28    47  -7.311  -7.657  -0.613  -2.058  -7.507  -3.486 -0.232 -0.582 -0.625  0.873 
+    MR   174   171 3   176     6     1     1    28    47  -8.198  -6.927  -0.498  -6.905  -2.039  -5.118 -0.822 -0.945 -1.510  1.358 
+     D   175   171 3   176     6     0     0    26    44  -9.093  -7.791  -3.588  -4.271  -4.288  -0.308 
+    IL   176   176 5   176     6     1     1    29    48  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR   177   177 6   177     5     1     1    29    48  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   29 ]     46     62 u a - -
+    MP   178   177 6   182     6     2     2    28    46 -10.845 -10.784  -0.006  -9.561  -9.771 -10.236 -4.200 -4.103 -4.317  1.259 -3.653 -4.943  1.421 -3.757 -4.292 -0.145 -4.838 -1.250  2.957 -4.400 -0.602 -0.522 
+    ML   179   177 6   182     6     1     1    26    45  -6.254  -6.600  -1.315  -1.001  -6.450  -3.980  0.362 -0.383 -0.198  0.106 
+    MR   180   177 6   182     6     1     1    26    45  -6.988  -5.717  -1.625  -5.695  -0.829  -3.908  0.368 -0.385 -0.191  0.094 
+     D   181   177 6   182     6     0     0    24    42  -9.297  -7.995  -3.792  -4.474  -4.491  -0.264 
+    IL   182   182 5   182     6     1     1    27    46  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR   183   183 6   183     5     1     1    27    46  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   30 ]     47     61 a u - -
+    MP   184   183 6   188     6     2     2    26    44 -10.845 -10.784  -0.006  -9.446  -9.840 -10.236 -4.868 -3.527 -4.738  2.698 -5.483 -5.369  0.358 -5.306 -5.101  2.493 -5.231 -0.855  0.012 -4.633 -0.890 -2.549 
+    ML   185   183 6   188     6     1     1    25    43  -6.254  -6.600  -1.304  -1.009  -6.450  -3.980  0.385 -0.397 -0.188  0.080 
+    MR   186   183 6   188     6     1     1    25    43  -6.991  -5.720  -1.619  -5.698  -0.832  -3.911  0.363 -0.369 -0.202  0.097 
+     D   187   183 6   188     6     0     0    22    41  -9.297  -7.995  -3.792  -4.474  -4.491  -0.264 
+    IL   188   188 5   188     6     1     1    26    44  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR   189   189 6   189     5     1     1    25    44  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   31 ]     48     60 G C - -
+    MP   190   189 6   194     6     2     2    24    42 -10.845 -10.784  -0.006  -9.561  -9.840 -10.236 -4.988 -3.631 -4.815  1.880 -5.867 -5.314  0.824 -1.002 -5.239  3.032 -5.495 -0.329 -0.747 -4.677 -2.982 -3.780 
+    ML   191   189 6   194     6     1     1    24    42  -6.257  -6.603  -1.300  -1.012  -6.453  -3.982  0.389 -0.424 -0.125  0.040 
+    MR   192   189 6   194     6     1     1    23    42  -6.988  -5.717  -1.625  -5.695  -0.829  -3.908  0.368 -0.385 -0.191  0.094 
+     D   193   189 6   194     6     0     0    22    40  -9.297  -7.995  -3.792  -4.474  -2.507  -0.512 
+    IL   194   194 5   194     6     1     1    24    42  -2.579  -2.842  -0.760  -4.497  -5.274  -4.934  0.000  0.000  0.000  0.000 
+    IR   195   195 6   195     5     1     1    23    42  -2.408  -0.496  -5.920  -4.087  -5.193          0.000  0.000  0.000  0.000 
+                                             [ MATP   32 ]     49     59 a u - -
+    MP   196   195 6   200     4     2     2    22    40  -6.730  -9.987  -0.020  -8.284                 -4.666 -0.604 -4.651  2.653 -5.539 -4.636 -0.525 -4.092 -4.747  2.429 -5.329  0.249  0.240 -3.745 -2.728 -3.107 
+    ML   197   195 6   200     4     1     1    23    41  -3.758  -3.940  -0.507  -2.670                  0.368 -0.385 -0.191  0.094 
+    MR   198   195 6   200     4     1     1    22    41  -4.976  -4.005  -1.873  -0.660                  0.171  0.077 -0.500  0.153 
+     D   199   195 6   200     4     0     0    21    40  -4.610  -4.291  -2.307  -0.503                 
+    IL   200   200 5   200     4     1     1    24    43  -2.017  -2.700  -0.807  -5.186                  0.000  0.000  0.000  0.000 
+    IR   201   201 6   201     3     1     1    24    42  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   33 ]     51      - u - - -
+    ML   202   201 6   204     3     1     1    18    36 -10.704  -0.003  -9.358                         -3.148  0.865 -3.624  0.989 
+     D   203   201 6   204     3     0     0    19    37  -6.512  -1.245  -0.818                         
+    IL   204   204 3   204     3     1     1    23    41  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   34 ]     52      - U - - -
+    ML   205   204 3   207     3     1     1    17    35 -10.709  -0.003  -9.363                         -3.955 -3.875 -5.067  1.940 
+     D   206   204 3   207     3     0     0    18    36  -6.233  -1.565  -0.624                         
+    IL   207   207 3   207     3     1     1    22    40  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   35 ]     53      - G - - -
+    ML   208   207 3   210     3     1     1    16    34 -10.710  -0.003  -9.364                         -4.299 -6.967  1.973 -6.064 
+     D   209   207 3   210     3     0     0    17    35  -6.174  -1.687  -0.566                         
+    IL   210   210 3   210     3     1     1    21    39  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   36 ]     54      - U - - -
+    ML   211   210 3   213     3     1     1    15    33 -10.710  -0.003  -9.364                         -6.067 -5.520 -6.940  1.984 
+     D   212   210 3   213     3     0     0    16    34  -6.174  -1.687  -0.566                         
+    IL   213   213 3   213     3     1     1    20    38  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   37 ]     55      - A - - -
+    ML   214   213 3   216     3     1     1    14    31 -10.710  -0.003  -9.364                          1.987 -6.762 -6.116 -6.301 
+     D   215   213 3   216     3     0     0    14    33  -6.174  -1.687  -0.566                         
+    IL   216   216 3   216     3     1     1    19    37  -1.442  -0.798  -4.142                          0.000  0.000  0.000  0.000 
+                                             [ MATL   38 ]     56      - A - - -
+    ML   217   216 3   219     3     1     1    13    29  -6.634  -0.017  -9.364                          1.551 -4.533 -0.013 -4.825 
+     D   218   216 3   219     3     0     0    12    28  -6.174  -1.687  -0.566                         
+    IL   219   219 3   219     3     1     1    16    32  -1.640  -0.667  -4.340                          0.000  0.000  0.000  0.000 
+                                             [ MATL   39 ]     58      - A - - -
+    ML   220   219 3   222     2     1     1     1     1       *   0.000                                  1.508 -0.543 -2.853 -1.592 
+     D   221   219 3   222     2     0     0     0     0       *   0.000                                 
+    IL   222   222 3   222     2     1     1    13    28  -1.823  -0.479                                  0.000  0.000  0.000  0.000 
+                                             [ END    40 ]      -      - - - - -
+     E   223   222 3    -1     0     0     0     0     0                                                 
+//
+HMMER3/f [3.1b3 | July 2016]
+NAME  trnY
+LENG  70
+MAXL  190
+ALPH  RNA
+RF    no
+MM    no
+CONS  yes
+CS    yes
+MAP   yes
+DATE  Wed Jul 11 21:03:42 2018
+COM   [1] /work/berntm/progz/infernal-1.1.2/src//cmbuild -F metazoa/cleaned/trnY.cm metazoa/cleaned/trnY.stk
+NSEQ  3596
+EFFN  689.116516
+CKSUM 2475394320
+STATS LOCAL MSV       -8.8217  0.72134
+STATS LOCAL VITERBI   -9.0922  0.72134
+STATS LOCAL FORWARD   -3.6247  0.72134
+HMM          A        C        G        U   
+            m->m     m->i     m->d     i->m     i->i     d->m     d->d
+  COMPO   1.24435  1.80253  1.42976  1.17888
+          1.38629  1.38629  1.38629  1.38629
+          0.00006 10.48547 10.48547  1.46634  0.26236  0.00000        *
+      1   1.21472  4.06379  0.57259  2.10406      1 G - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00056 10.48547  7.53283  1.46634  0.26236  1.09861  0.40547
+      2   1.48526  3.04410  0.40893  2.78785      2 G - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00071 10.48496  7.28653  1.46634  0.26236  3.05194  0.04842
+      3   2.90238  1.91903  3.35414  0.26995      3 U - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.02530  4.75074  4.11419  0.00646  5.04558  3.79886  0.02265
+      4   0.46446  2.99367  1.59582  2.13131      5 A - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.01305  4.70332  5.54747  0.00626  5.07640  5.15444  0.00579
+      5   0.54079  3.87024  1.28153  2.12654      7 A - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.01025  4.62748  7.77002  0.00583  5.14809  2.48808  0.08672
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+      7   0.54857  4.77149  1.27244  2.01282     11 A - - (
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+      8   3.21918  4.13387  5.78679  0.06089     12 U - - ,
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+          0.00006 10.46350 10.46350  1.46634  0.26236  2.23582  0.11306
+      9   1.55562  4.03715  0.26685  5.20265     13 G - - ,
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+          0.04356 10.46613  3.15595  1.46634  0.26236  0.00287  5.85527
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+     11   7.98519  0.15835  3.21857  2.24340     16 C - - <
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+          0.00323 10.44469  5.74483  1.46634  0.26236  1.08944  0.41008
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+          1.38629  1.38629  1.38629  1.38629
+          0.00586 10.45731  5.14715  1.46634  0.26236  2.51989  0.08389
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+     14   0.03186  5.55525  4.37227  4.20882     30 A - - _
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+          0.00386 10.45261  5.56639  1.46634  0.26236  4.13674  0.01610
+     15   1.43911  4.08213  0.61282  1.58880     31 G - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00827 10.44940  4.80252  1.46634  0.26236  0.94838  0.48999
+     16   1.44092  2.71472  1.66792  0.67643     32 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.21623 10.45755  1.63773  1.46634  0.26236  2.05258  0.13743
+     17   1.28169  2.96259  0.81724  1.47361     33 g - - _
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+          0.17193 10.24674  1.84564  1.46634  0.26236  6.27511  0.00188
+     18   1.76285  2.99147  1.38901  0.63694     34 U - - _
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+          0.12317 10.07548  2.15554  1.46634  0.26236  3.37717  0.03474
+     19   1.85077  1.96590  3.27253  0.40805     35 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.91136  0.51641  6.59809  0.20841  1.67066  0.07305  2.65297
+     20   0.16507  4.63020  2.40810  2.94832     39 A - - >
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+          0.00006 10.46109 10.46109  1.46634  0.26236  1.81307  0.17811
+     21   0.86027  4.51955  0.97581  1.66511     40 a - - >
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+          0.01137 10.46598  4.48513  1.46634  0.26236  3.64463  0.02648
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+          0.00823  4.80792 10.45531  0.00704  4.95987  0.49335  0.94308
+     23   3.19448  0.37744  4.63041  1.33315     43 C - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00006 10.47714 10.47714  1.46634  0.26236  0.00409  5.50209
+     24   1.19972  3.78811  0.43516  3.54314     44 G - - ,
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+          0.04630 10.49077  3.09631  1.46634  0.26236  1.09861  0.40547
+     25   1.65711  2.20028  1.02897  1.07540     45 g - - <
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+          0.00384 10.44453  5.57108  1.46634  0.26236  0.01727  4.06728
+     26   1.84199  2.16058  3.30657  0.37165     46 U - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00013 10.48644  9.22944  1.46634  0.26236  5.06680  0.00632
+     27   0.66485  2.71956  1.12725  2.34524     47 A - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00006 10.48637 10.48637  1.46634  0.26236  3.82553  0.02205
+     28   1.37441  1.82004  0.56772  4.00763     48 G - - <
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+          0.00006 10.48644 10.48644  1.46634  0.26236  5.06680  0.00632
+     29   0.59921  3.83466  1.04654  2.55111     49 A - - <
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+          0.00920  4.72548  8.12731  0.00628  5.07283  5.06680  0.00632
+     30   7.14042  0.74273  4.79182  0.66340     51 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00006 10.48617 10.48617  1.46634  0.26236  0.18127  1.79702
+     31   5.32076  5.55696  8.13856  0.00908     52 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00006 10.49005 10.49005  1.46634  0.26236  0.07173  2.67049
+     32   4.75951  9.55145  0.00882  8.84016     53 G - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00006 10.49077 10.49077  1.46634  0.26236  1.09861  0.40547
+     33  10.21234  9.26562 11.29127  0.00014     54 U - - _
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+          0.00006 10.49077 10.49077  1.46634  0.26236  1.09861  0.40547
+     34   0.00039  9.30492  8.77903  8.84344     55 A - - _
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+     35   0.29299  5.66744  1.38514  8.40246     56 A - - _
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+     37   2.64930  1.08884  3.97689  0.55521     59 U - - >
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+          0.00381 10.49005  5.57813  1.46634  0.26236  3.36364  0.03522
+     38   4.03460  0.63443  2.13426  1.09739     60 C - - >
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+          0.00014 10.48629  9.10291  1.46634  0.26236  3.28556  0.03814
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+          0.00006 10.48635 10.48635  1.46634  0.26236  5.08546  0.00621
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+          0.00003 10.49064        *  1.46634  0.26236  0.00000        *
+//