test/jalview/util/test_hmms_for_probability_analysis

   1 HMMER3/f [3.1b2 | February 2015]
   2 NAME  test1
   3 LENG  4
   4 ALPH  amino
   5 RF    no
   6 MM    no
   7 CONS  yes
   8 CS    no
   9 MAP   yes
  10 DATE  Fri Jul 21 06:35:06 2017
  11 NSEQ  3
  12 EFFN  3.000000
  13 CKSUM 657102310
  14 STATS LOCAL MSV       -5.0223  0.82341
  15 STATS LOCAL VITERBI   -4.9569  0.82341
  16 STATS LOCAL FORWARD   -2.0282  0.82341
  17 HMM          A        C        D        E        F        G        H        I        K        L        M        N        P        Q        R        S        T        V        W        Y
  18             m->m     m->i     m->d     i->m     i->i     d->m     d->d
  19   COMPO   1.94296  5.20658  4.78882  4.52987  4.66525  2.54188  5.19553  2.25221  4.08549  3.87133  5.00250  4.55734  4.73106  4.65220  2.77287  3.67799  1.53923  3.75384  1.48526  4.84023
  20           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  21           0.01083  4.92694  5.64929  0.61958  0.77255  0.00000        *
  22       1   0.67027  4.79120  4.60974  4.51892  5.43734  1.28080  5.43621  4.90028  4.64310  4.61059  5.39837  4.28688  4.41468  4.80804  4.79047  3.08135  3.44468  4.10506  6.74908  5.67939      1 A - - -
  23           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  24           0.01083  4.92694  5.64929  0.61958  0.77255  0.48576  0.95510
  25       2   5.43405  6.34487  5.85697  5.84679  4.39288  5.10370  5.65594  5.70664  5.69821  4.87848  6.25251  5.89664  5.70261  6.00722  5.60902  5.64576  5.80049  5.59366  0.08910  4.36301      2 W - - -
  26           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  27           0.01083  4.92694  5.64929  0.61958  0.77255  0.48576  0.95510
  28       3   3.42384  5.23617  4.84601  4.77568  5.39247  4.01365  5.64153  4.72950  4.75585  4.52264  5.55782  4.69647  4.81267  5.08969  4.87301  3.64217  0.20934  4.25217  6.65833  5.63018      3 T - - -
  29           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  30           0.01083  4.92694  5.64929  0.61958  0.77255  0.48576  0.95510
  31       4   3.53954  5.09963  4.71395  4.06038  4.20429  4.44020  4.65482  0.90152  3.16536  2.96072  4.13056  4.31689  4.83725  3.95143  1.46549  3.86829  3.78084  2.85654  5.74911  4.54685      4 i - - -
  32           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  33           0.00730  4.92341        *  0.61958  0.77255  0.00000        *
  34 //
  35 HMMER3/f [3.1b2 | February 2015]
  36 NAME  test2
  37 LENG  3
  38 ALPH  amino
  39 RF    no
  40 MM    no
  41 CONS  yes
  42 CS    no
  43 MAP   yes
  44 DATE  Fri Jul 21 06:36:50 2017
  45 NSEQ  2
  46 EFFN  2.000000
  47 CKSUM 777554360
  48 STATS LOCAL MSV       -5.2452  0.95763
  49 STATS LOCAL VITERBI   -5.2886  0.95763
  50 STATS LOCAL FORWARD   -1.5134  0.95763
  51 HMM          A        C        D        E        F        G        H        I        K        L        M        N        P        Q        R        S        T        V        W        Y
  52             m->m     m->i     m->d     i->m     i->i     d->m     d->d
  53   COMPO   1.33364  4.79082  4.44132  4.24796  3.91456  3.75718  4.85762  2.23342  4.16821  3.09137  4.29744  4.25088  4.41741  4.46803  4.31080  3.33397  1.39376  3.21010  2.54819  4.14914
  54           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  55           0.01467  4.62483  5.34718  0.61958  0.77255  0.00000        *
  56       1   0.32372  4.76536  4.42980  4.32857  5.00499  3.55951  5.22620  4.27004  4.37081  4.10495  5.08789  4.22499  4.36948  4.63911  4.51684  3.12947  3.46009  3.76842  6.33337  5.25783      1 A - - -
  57           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  58           0.01467  4.62483  5.34718  0.61958  0.77255  0.48576  0.95510
  59       2   3.04414  4.87155  4.35068  4.21532  4.89213  3.66881  5.13994  4.14202  4.17893  3.96810  5.00600  4.23490  4.44590  4.53729  4.35178  3.25814  0.35496  3.73038  6.23308  5.12388      2 T - - -
  60           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  61           0.01467  4.62483  5.34718  0.61958  0.77255  0.48576  0.95510
  62       3   3.41901  4.77187  4.98694  4.49106  3.10447  4.49364  4.52024  1.21391  4.22709  2.30875  3.57865  4.53952  4.83367  4.43564  4.31127  3.88439  3.66452  2.61326  1.44329  3.34125      3 i - - -
  63           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  64           0.00990  4.62006        *  0.61958  0.77255  0.00000        *
  65 //
  66 HMMER3/f [3.1b2 | February 2015]
  67 NAME  test3
  68 LENG  4
  69 ALPH  amino
  70 RF    no
  71 MM    no
  72 CONS  yes
  73 CS    no
  74 MAP   yes
  75 DATE  Fri Jul 21 06:37:01 2017
  76 NSEQ  2
  77 EFFN  2.000000
  78 CKSUM 986955970
  79 STATS LOCAL MSV       -5.4578  0.80004
  80 STATS LOCAL VITERBI   -5.2499  0.80004
  81 STATS LOCAL FORWARD   -2.1856  0.80004
  82 HMM          A        C        D        E        F        G        H        I        K        L        M        N        P        Q        R        S        T        V        W        Y
  83             m->m     m->i     m->d     i->m     i->i     d->m     d->d
  84   COMPO   2.16700  5.33023  4.57707  4.32329  4.15728  4.03215  4.83242  4.49728  3.73978  4.00181  5.18156  4.45520  4.63709  4.41734  1.53081  3.84281  4.10073  4.20172  0.82417  4.15750
  85           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  86           0.01467  4.62483  5.34718  0.61958  0.77255  0.00000        *
  87       1   4.09153  5.75008  4.67229  4.09411  5.31638  4.34678  4.67762  4.97541  2.93879  4.35023  5.37643  4.37234  4.85576  3.90366  0.27042  4.17197  4.33362  4.67489  6.11461  5.14175      1 R - - -
  88           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  89           0.39762  4.62483  1.14482  0.61958  0.77255  0.48576  0.95510
  90       2   0.58385  4.42717  3.89187  3.72118  4.47383  3.23815  4.69159  3.65968  3.74862  3.52210  4.52478  3.76053  4.01438  4.05655  3.96007  2.78076  3.08518  3.24526  5.86063  4.71068      2 A - - -
  91           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  92           0.02145  4.24866  4.97100  0.61958  0.77255  0.27360  1.42978
  93       3   4.82318  5.87391  5.36844  5.28961  3.81117  4.70308  5.10523  4.98084  5.06729  4.21822  5.56037  5.33222  5.28501  5.40387  5.04111  5.02415  5.17266  4.88017  0.16601  3.78547      3 W - - -
  94           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  95           0.01467  4.62483  5.34718  0.61958  0.77255  0.48576  0.95510
  96       4   4.82318  5.87391  5.36844  5.28961  3.81117  4.70308  5.10523  4.98084  5.06729  4.21822  5.56037  5.33222  5.28501  5.40387  5.04111  5.02415  5.17266  4.88017  0.16601  3.78547      4 W - - -
  97           2.68618  4.42225  2.77519  2.73123  3.46354  2.40513  3.72494  3.29354  2.67741  2.69355  4.24690  2.90347  2.73739  3.18146  2.89801  2.37887  2.77519  2.98518  4.58477  3.61503
  98           0.00990  4.62006        *  0.61958  0.77255  0.00000        *
  99 //