CAARD:Pepsins A1b d2 - Revision history

imported>Gydbwiki: New page: {{CAARD |pin_output= (Nepheneshi:0.598438,Nucelin_2:1.004286,(CND41_2:0.590814,(AtASP38_2:0.777249,NM_114992.:0.693684)N3:0.138354)N2:0.127675); |fin_output=
2009-05-08T10:58:50Z
New page: {{CAARD |pin_output= (Nepheneshi:0.598438,Nucelin_2:1.004286,(CND41_2:0.590814,(AtASP38_2:0.777249,NM_114992.:0.693684)N3:0.138354)N2:0.127675); |fin_output= <table class="tabdata"> <tr ...
New page
{{CAARD
|pin_output=
(Nepheneshi:0.598438,Nucelin_2:1.004286,(CND41_2:0.590814,(AtASP38_2:0.777249,NM_114992.:0.693684)N3:0.138354)N2:0.127675);

|fin_output=
<table class="tabdata">
<tr class="grey">
<td>Name</td>
<td>Father</td>
<td>Distance to father</td>
<td>Sons</td>
</tr>
<tr><td>Nepheneshi</td><td>N1</td><td>0.598438</td><td>-</td></tr><tr><td>Nucelin_1</td><td>N1</td><td>1.00429</td><td>-</td></tr><tr><td>CND41_1</td><td>N2</td><td>0.590814</td><td>-</td></tr><tr><td>AtASP38_1</td><td>N3</td><td>0.777249</td><td>-</td></tr><tr><td>NM_114992.</td><td>N3</td><td>0.693684</td><td>-</td></tr><tr><td>N1</td><td>root!</td><td>-</td><td>Nepheneshi Nucelin_2 N2</td></tr><tr><td>N2</td><td>N1</td><td>0.127675</td><td>CND41_2 N3</td></tr><tr><td>N3</td><td>N2</td><td>0.138354</td><td>AtASP38_2 NM_114992.</td></tr>
</table>

|jpf_output=
<table class="tabdata">
<tr class="grey">
<td>Position</td>
<td>Joint probability</td>
<td>Position</td>
<td>Joint probability</td>
<td>Position</td>
<td>Joint probability</td>
<td>Position</td>
<td>Joint probability</td>
</tr>
<tr class="text"><td>0</td><td>1.05584e-008</td><td>38</td><td> 1.23182e-006</td><td>76</td><td> 0.000659766</td><td>114</td><td> 9.39552e-009</td></tr><tr class="text"><td>1</td><td> 8.77643e-007</td><td>39</td><td> 2.93795e-008</td><td>77</td><td> 1.46946e-007</td><td>115</td><td> 1.81676e-006</td></tr><tr class="text"><td>2</td><td> 3.75738e-006</td><td>40</td><td> 1.99776e-008</td><td>78</td><td> 5.63291e-009</td><td>116</td><td> 1.43145e-008</td></tr><tr class="text"><td>3</td><td> 7.47592e-007</td><td>41</td><td> 3.0526e-007</td><td>79</td><td> 2.3127e-008</td><td>117</td><td> 1.27613e-007</td></tr><tr class="text"><td>4</td><td> 0.00123823</td><td>42</td><td> 3.64986e-008</td><td>80</td><td> 6.88547e-008</td><td>118</td><td> 1.49639e-006</td></tr><tr class="text"><td>5</td><td> 8.98428e-005</td><td>43</td><td>1.91231e-007</td><td>81</td><td> 4.78394e-008</td><td>119</td><td> 1.14191e-005</td></tr><tr class="text"><td>6</td><td> 0.00628563</td><td>44</td><td> 1.06537e-006</td><td>82</td><td> 3.67134e-008</td><td>120</td><td> 0.00938721</td></tr><tr class="text"><td>7</td><td> 0.000202103</td><td>45</td><td> 1.75269e-006</td><td>83</td><td> 3.21952e-007</td><td>121</td><td> 0.000110466</td></tr><tr class="text"><td>8</td><td> 3.34591e-007</td><td>46</td><td> 3.65546e-005</td><td>84</td><td> 1.09494e-007</td><td>122</td><td> 2.26106e-005</td></tr><tr class="text"><td>9</td><td> 2.92737e-006</td><td>47</td><td> 1.12667e-006</td><td>85</td><td> 1.43234e-005</td><td>123</td><td> 0.00628563</td></tr><tr class="text"><td>10</td><td> 0.000462267</td><td>48</td><td> 5.72498e-008</td><td>86</td><td>2.00736e-005</td><td>124</td><td> 2.1602e-007</td></tr><tr class="text"><td>11</td><td> 4.63047e-007</td><td>49</td><td> 0.00218568</td><td>87</td><td>0.000154799</td><td>125</td><td> 6.98604e-009</td></tr><tr class="text"><td>12</td><td> 0.000821593</td><td>50</td><td> 5.62517e-006</td><td>88</td><td>0.000393045</td><td>126</td><td> 3.74952e-008</td></tr><tr class="text"><td>13</td><td> 6.93083e-007</td><td>51</td><td> 8.3167e-008</td><td>89</td><td>0.000160279</td><td>127</td><td> 2.01219e-007</td></tr><tr class="text"><td>14</td><td> 3.2791e-008</td><td>52</td><td> 3.6746e-007</td><td>90</td><td>2.63554e-005</td><td>128</td><td> 4.80926e-007</td></tr><tr class="text"><td>15</td><td> 2.34297e-007</td><td>53</td><td> 0.000190547</td><td>91</td><td>4.41311e-007</td><td>129</td><td>5.88745e-007</td></tr><tr class="text"><td>16</td><td> 1.91937e-007</td><td>54</td><td> 0.000285897</td><td>92</td><td>1.30181e-005</td><td>130</td><td>1.03307e-009</td></tr><tr class="text"><td>17</td><td> 0.00324838</td><td>55</td><td> 0.0205774</td><td>93</td><td>1.56149e-006</td><td>131</td><td>4.10085e-008</td></tr><tr class="text"><td>18</td><td> 1.78577e-008</td><td>56</td><td> 0.00352966</td><td>94</td><td>2.37157e-009</td><td>132</td><td>0.000122005</td></tr><tr class="text"><td>19</td><td> 4.22659e-005</td><td>57</td><td> 0.00742295</td><td>95</td><td>3.89863e-008</td><td>133</td><td>2.31701e-006</td></tr><tr class="text"><td>20</td><td> 8.76524e-006</td><td>58</td><td> 1.5757e-006</td><td>96</td><td>0.000120063</td><td>134</td><td>9.19051e-005</td></tr><tr class="text"><td>21</td><td> 1.39693e-007</td><td>59</td><td> 7.60743e-008</td><td>97</td><td>0.000987447</td><td>135</td><td>0.00123823</td></tr><tr class="text"><td>22</td><td> 1.10047e-007</td><td>60</td><td> 9.02912e-007</td><td>98</td><td>0.000529163</td><td>136</td><td>1.18171e-007</td></tr><tr class="text"><td>23</td><td> 1.46188e-007</td><td>61</td><td> 7.06964e-008</td><td>99</td><td>0.000535224</td><td>137</td><td>4.69255e-007</td></tr><tr class="text"><td>24</td><td> 0.000226527</td><td>62</td><td> 6.43748e-008</td><td>100</td><td> 0.00235461</td><td>138</td><td>2.30455e-006</td></tr><tr class="text"><td>25</td><td> 3.05265e-008</td><td>63</td><td> 9.50906e-008</td><td>101</td><td> 3.76736e-009</td><td>139</td><td>3.45341e-007</td></tr><tr class="text"><td>26</td><td> 2.67186e-007</td><td>64</td><td> 7.60476e-008</td><td>102</td><td> 5.32088e-007</td><td>140</td><td>5.27395e-008</td></tr><tr class="text"><td>27</td><td> 7.98697e-007</td><td>65</td><td> 3.11385e-008</td><td>103</td><td> 0.00218568</td><td>141</td><td>6.02463e-005</td></tr><tr class="text"><td>28</td><td> 4.40938e-007</td><td>66</td><td> 6.65053e-007</td><td>104</td><td> 0.0417853</td><td>142</td><td>0.00048424</td></tr><tr class="text"><td>29</td><td> 1.09657e-006</td><td>67</td><td> 0.000174205</td><td>105</td><td> 0.0332422</td><td>143</td><td>2.84862e-008</td></tr><tr class="text"><td>30</td><td> 0.0379915</td><td>68</td><td> 8.70328e-009</td><td>106</td><td> 8.19313e-005</td><td>144</td><td>8.23376e-007</td></tr><tr class="text"><td>31</td><td> 0.000208277</td><td>69</td><td> 1.11598e-005</td><td>107</td><td> 4.27604e-005</td><td>145</td><td>3.45384e-008</td></tr><tr class="text"><td>32</td><td> 0.000405029</td><td>70</td><td> 1.89745e-005</td><td>108</td><td> 6.622e-007</td><td>146</td><td>9.42145e-009</td></tr><tr class="text"><td>33</td><td> 0.000198936</td><td>71</td><td> 1.40409e-005</td><td>109</td><td> 0.00050124</td><td>147</td><td>1.65115e-006</td></tr><tr class="text"><td>34</td><td> 1.77253e-008</td><td>72</td><td> 4.13386e-008</td><td>110</td><td> 2.9649e-006</td><td>148</td><td>0.00218568</td></tr><tr class="text"><td>35</td><td> 2.70619e-010</td><td>73</td><td> 0.00049691</td><td>111</td><td> 1.45167e-007</td><td> </td><td> </td></tr><tr class="text"><td>36</td><td> 1.24788e-007</td><td>74</td><td> 5.05574e-005</td><td>112</td><td> 8.36337e-008</td><td> </td><td> </td></tr><tr class="text"><td>37</td><td> 3.67762e-010</td><td>75</td><td> 0.000500941</td><td>113</td><td> 4.64907e-009</td><td> </td><td> </td></tr><tr><td colspan="7" class="grey right">Total log likelihood of joint reconstruction: </td><td class="grey">-1911.36</td></tr>
</table>

|jrof_output=
<align id="pepsins_a1b_d2" folder="jrof"></align>

|mpf_output=
<table class="tabdata">
<tr class="grey">
<td>Position</td>
<td>Joint probability</td>
<td>Position</td>
<td>Joint probability</td>
<td>Position</td>
<td>Joint probability</td>
<td>Position</td>
<td>Joint probability</td>
</tr>
<tr class="text"><td>0</td><td>7.0606e-008</td><td>38</td><td>3.88275e-006</td><td>76</td><td>0.000671543</td><td>114</td><td>7.50107e-008</td></tr><tr class="text"><td>1</td><td>2.44515e-006</td><td>39</td><td>1.34277e-007</td><td>77</td><td>3.45572e-007</td><td>115</td><td>3.67835e-006</td></tr><tr class="text"><td>2</td><td>1.69595e-005</td><td>40</td><td>5.0922e-008</td><td>78</td><td>1.71745e-008</td><td>116</td><td>9.59926e-008</td></tr><tr class="text"><td>3</td><td>1.71535e-006</td><td>41</td><td>5.12374e-007</td><td>79</td><td>6.39184e-008</td><td>117</td><td>7.6041e-007</td></tr><tr class="text"><td>4</td><td>0.00126388</td><td>42</td><td>2.59235e-007</td><td>80</td><td>2.77404e-007</td><td>118</td><td>4.44491e-006</td></tr><tr class="text"><td>5</td><td>0.000102883</td><td>43</td><td>5.39239e-007</td><td>81</td><td>2.8946e-007</td><td>119</td><td>3.80404e-005</td></tr><tr class="text"><td>6</td><td>0.00629391</td><td>44</td><td>1.51615e-006</td><td>82</td><td>1.43325e-007</td><td>120</td><td>0.042645</td></tr><tr class="text"><td>7</td><td>0.00021335</td><td>45</td><td>6.63099e-006</td><td>83</td><td>4.51384e-007</td><td>121</td><td>0.000135864</td></tr><tr class="text"><td>8</td><td>6.70594e-007</td><td>46</td><td>4.15319e-005</td><td>84</td><td>5.20175e-007</td><td>122</td><td>2.56221e-005</td></tr><tr class="text"><td>9</td><td>3.45917e-006</td><td>47</td><td>3.24688e-006</td><td>85</td><td>6.10889e-005</td><td>123</td><td>0.00629391</td></tr><tr class="text"><td>10</td><td>0.000470541</td><td>48</td><td>4.19103e-007</td><td>86</td><td>0.000112138</td><td>124</td><td>5.41333e-007</td></tr><tr class="text"><td>11</td><td>6.11003e-007</td><td>49</td><td>0.00218583</td><td>87</td><td>0.000678693</td><td>125</td><td>4.10995e-008</td></tr><tr class="text"><td>12</td><td>0.000844953</td><td>50</td><td>6.88316e-006</td><td>88</td><td>0.00177444</td><td>126</td><td>9.07419e-008</td></tr><tr class="text"><td>13</td><td>3.02291e-006</td><td>51</td><td>2.98002e-007</td><td>89</td><td>0.000946008</td><td>127</td><td>2.11889e-007</td></tr><tr class="text"><td>14</td><td>1.01845e-007</td><td>52</td><td>1.94885e-006</td><td>90</td><td>2.87983e-005</td><td>128</td><td>5.96466e-007</td></tr><tr class="text"><td>15</td><td>5.94928e-007</td><td>53</td><td>0.000461756</td><td>91</td><td>7.69054e-007</td><td>129</td><td>2.3831e-006</td></tr><tr class="text"><td>16</td><td>6.35624e-007</td><td>54</td><td>0.00131249</td><td>92</td><td>1.86208e-005</td><td>130</td><td>6.10716e-009</td></tr><tr class="text"><td>17</td><td>0.00325399</td><td>55</td><td>0.058676</td><td>93</td><td>6.47927e-006</td><td>131</td><td>5.82587e-008</td></tr><tr class="text"><td>18</td><td>9.03421e-008</td><td>56</td><td>0.00912524</td><td>94</td><td>6.88612e-009</td><td>132</td><td>0.000267786</td></tr><tr class="text"><td>19</td><td>4.64258e-005</td><td>57</td><td>0.00979944</td><td>95</td><td>2.66498e-007</td><td>133</td><td>3.79111e-006</td></tr><tr class="text"><td>20</td><td>1.7759e-005</td><td>58</td><td>6.50723e-006</td><td>96</td><td>0.00018515</td><td>134</td><td>0.000186764</td></tr><tr class="text"><td>21</td><td>3.19185e-007</td><td>59</td><td>2.72368e-007</td><td>97</td><td>0.00131383</td><td>135</td><td>0.00126388</td></tr><tr class="text"><td>22</td><td>3.40523e-007</td><td>60</td><td>2.87616e-006</td><td>98</td><td>0.000941853</td><td>136</td><td>2.42698e-007</td></tr><tr class="text"><td>23</td><td>2.0202e-007</td><td>61</td><td>1.32635e-007</td><td>99</td><td>0.00255925</td><td>137</td><td>9.5766e-007</td></tr><tr class="text"><td>24</td><td>0.000228592</td><td>62</td><td>2.09192e-007</td><td>100</td><td>0.00778349</td><td>138</td><td>2.81062e-006</td></tr><tr class="text"><td>25</td><td>1.29468e-007</td><td>63</td><td>1.61541e-007</td><td>101</td><td>2.16464e-008</td><td>139</td><td>4.98905e-007</td></tr><tr class="text"><td>26</td><td>5.74663e-007</td><td>64</td><td>1.46775e-007</td><td>102</td><td>1.42101e-006</td><td>140</td><td>1.18904e-007</td></tr><tr class="text"><td>27</td><td>1.21284e-006</td><td>65</td><td>6.4128e-008</td><td>103</td><td>0.00218583</td><td>141</td><td>7.35656e-005</td></tr><tr class="text"><td>28</td><td>1.07054e-006</td><td>66</td><td>1.96935e-006</td><td>104</td><td>0.091904</td><td>142</td><td>0.000498747</td></tr><tr class="text"><td>29</td><td>1.7667e-006</td><td>67</td><td>0.00017577</td><td>105</td><td>0.073152</td><td>143</td><td>9.58059e-008</td></tr><tr class="text"><td>30</td><td>0.073152</td><td>68</td><td>6.33667e-008</td><td>106</td><td>8.79658e-005</td><td>144</td><td>2.65173e-006</td></tr><tr class="text"><td>31</td><td>0.0013283</td><td>69</td><td>4.07402e-005</td><td>107</td><td>6.94824e-005</td><td>145</td><td>6.14211e-008</td></tr><tr class="text"><td>32</td><td>0.0017886</td><td>70</td><td>3.00376e-005</td><td>108</td><td>1.03001e-006</td><td>146</td><td>3.73727e-008</td></tr><tr class="text"><td>33</td><td>0.000843417</td><td>71</td><td>4.0861e-005</td><td>109</td><td>0.000506209</td><td>147</td><td>6.6244e-006</td></tr><tr class="text"><td>34</td><td>7.17919e-008</td><td>72</td><td>2.50224e-007</td><td>110</td><td>4.38388e-006</td><td>148</td><td>0.00218583</td></tr><tr class="text"><td>35</td><td>2.76684e-009</td><td>73</td><td>0.00050105</td><td>111</td><td>4.94246e-007</td><td> </td><td> </td></tr><tr class="text"><td>36</td><td>2.50338e-007</td><td>74</td><td>6.97493e-005</td><td>112</td><td>4.48404e-007</td><td> </td><td> </td></tr><tr class="text"><td>37</td><td>8.73953e-009</td><td>75</td><td>0.000506731</td><td>113</td><td>3.65603e-008</td><td> </td><td> </td></tr><tr><td colspan="7" class="grey right">Total log likelihood of joint reconstruction: </td><td class="grey">-1776.53</td></tr>
</table>

|mrof_output=
<align id="pepsins_a1b_d2" folder="mrof"></align>

|sequence_logo=
[[Image:Logo_pepsins_a1b_d2.png|500px|center]]

|hmms=
<pre>
>AP_pepsins_a1b_d2 profile HMM generated consensus sequence
qvlfDSGTtfTyLlqpvYnAvrsaFtdqinakrtpvspplsaLdvCYklsvrltdgttv
rfPtvSlrFEGGaqmvseqppmLfIsrnegnvvCamGSsshmgmtanIIGniqQqnkrV
vYDlqRsrLGwaptqC
</pre>

|pairwise_alignment=
<pre>
Domain 1 of 1, from 4 to 122: score 31.4, E = 3.5e-10

DTG_ILG template ->vDTGAsvlsviskecklaqklgltrkk.a.fdp.SS.Y...v.C...
+D+G++ + ++ + + +a + ++t++++a+++p S++++ + C +
AP_pepsins 4 FDSGTTFTYLLQPVY-NAVRSAFTDQInAkRTPvSPpLsalDvCykl 49

ivtllsysqPssktsttaqdtirgagGqskiyvSklktsgqirknllslv
+v+l +++++ +++t +++r gG +++vS + +++ +
AP_pepsins 50 SVRL---TDGTTVRFPT--VSLRFEGG--AQMVS--EQPPML-------F 83

tikitkGnvTevenrslpsdgvflvvtdpedqksrydvILGrldfLrqln
+ Gnv +++++s+ ++ + I+G+ + +q +
AP_pepsins 84 ISRNE-GNV----VCAMGSS--SHMG--M------TANIIGN--IQQQNK 116

svhidl<-
v+ dl
AP_pepsins 117 RVVYDL 122
</pre>
}}