imported>Gydbwiki: New page: {{CAARD |pin_output= ((SERV:0.083916,(MPMV:0.005850,SRV-1:0.005850)N3:0.086036)N2:0.183677, (MMTV:0.485878,(RTVL-H3:0.724208,HERV-K10:0.488442)N5:0.110959)N4:0.060627,(SMRV-H:0.239491,JSRV...

2009-05-08T12:08:36Z

New page: {{CAARD |pin_output= ((SERV:0.083916,(MPMV:0.005850,SRV-1:0.005850)N3:0.086036)N2:0.183677, (MMTV:0.485878,(RTVL-H3:0.724208,HERV-K10:0.488442)N5:0.110959)N4:0.060627,(SMRV-H:0.239491,JSRV...

New page

{{CAARD
|pin_output=
((SERV:0.083916,(MPMV:0.005850,SRV-1:0.005850)N3:0.086036)N2:0.183677, (MMTV:0.485878,(RTVL-H3:0.724208,HERV-K10:0.488442)N5:0.110959)N4:0.060627,(SMRV-H:0.239491,JSRV:0.359773)N6:0.031609);

|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>SERV</td><td>N2</td><td>0.0839156</td><td>-</td></tr><tr><td>MPMV</td><td>N3</td><td>0.00584983</td><td>-</td></tr><tr><td>SRV-1</td><td>N3</td><td>0.00584983</td><td>-</td></tr><tr><td>MMTV</td><td>N4</td><td>0.485878</td><td>-</td></tr><tr><td>RTVL-H3</td><td>N5</td><td>0.724208</td><td>-</td></tr><tr><td>HERV-K10</td><td>N5</td><td>0.488442</td><td>-</td></tr><tr><td>SMRV-H</td><td>N6</td><td>0.239491</td><td>-</td></tr><tr><td>JSRV</td><td>N6</td><td>0.359773</td><td>-</td></tr><tr><td>N1</td><td>root!</td><td>-</td><td>N2 N4 N6</td></tr><tr><td>N2</td><td>N1</td><td>0.183677</td><td>SERV N3</td></tr><tr><td>N3</td><td>N2</td><td>0.0860362</td><td>MPMV SRV-1</td></tr><tr><td>N4</td><td>N1</td><td>0.0606267</td><td>MMTV N5</td></tr><tr><td>N5</td><td>N4</td><td>0.110959</td><td>RTVL-H3 HERV-K10</td></tr><tr><td>N6</td><td>N1</td><td>0.0316087</td><td>SMRV-H JSRV</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>1.71239e-006</td><td>23</td><td>2.37951e-006</td><td>46</td><td>1.53929e-008</td><td>69</td><td>3.06092e-006</td></tr><tr class="text"><td>1</td><td>0.00304456</td><td>24</td><td>6.65944e-009</td><td>47</td><td>0.0115193</td><td>70</td><td>3.31159e-006</td></tr><tr class="text"><td>2</td><td>0.00151293</td><td>25</td><td>3.25017e-005</td><td>48</td><td>0.000135832</td><td>71</td><td>0.0145443</td></tr><tr class="text"><td>3</td><td>0.0118904</td><td>26</td><td>2.814e-010</td><td>49</td><td>1.97911e-011</td><td>72</td><td>0.000202726</td></tr><tr class="text"><td>4</td><td>0.00257428</td><td>27</td><td>0.001378</td><td>50</td><td>1.85621e-007</td><td>73</td><td>0.0118904</td></tr><tr class="text"><td>5</td><td>0.000109893</td><td>28</td><td>1.30865e-008</td><td>51</td><td>2.01843e-010</td><td>74</td><td>0.00307066</td></tr><tr class="text"><td>6</td><td>1.41809e-009</td><td>29</td><td>0.0118904</td><td>52</td><td>1.39693e-006</td><td>75</td><td>0.000469603</td></tr><tr class="text"><td>7</td><td>8.65925e-006</td><td>30</td><td>0.000246553</td><td>53</td><td>2.77061e-009</td><td>76</td><td>1.19715e-005</td></tr><tr class="text"><td>8</td><td>4.01624e-008</td><td>31</td><td>0.015944</td><td>54</td><td>1.19421e-008</td><td>77</td><td>0.000613426</td></tr><tr class="text"><td>9</td><td>0.000410954</td><td>32</td><td>0.0118904</td><td>55</td><td>7.98552e-006</td><td>78</td><td>1.72681e-007</td></tr><tr class="text"><td>10</td><td>4.28268e-008</td><td>33</td><td>3.42962e-007</td><td>56</td><td>0.000333466</td><td>79</td><td>6.16299e-007</td></tr><tr class="text"><td>11</td><td>1.29917e-014</td><td>34</td><td>1.27089e-005</td><td>57</td><td>1.45847e-010</td><td>80</td><td>1.21593e-007</td></tr><tr class="text"><td>12</td><td>5.30984e-011</td><td>35</td><td>6.63916e-009</td><td>58</td><td>1.74301e-008</td><td>81</td><td>4.91465e-008</td></tr><tr class="text"><td>13</td><td>9.63425e-010</td><td>36</td><td>3.4956e-007</td><td>59</td><td>5.86821e-008</td><td>82</td><td>0.00017905</td></tr><tr class="text"><td>14</td><td>0.000170846</td><td>37</td><td>0.0123011</td><td>60</td><td>0.0135052</td><td>83</td><td>5.21427e-008</td></tr><tr class="text"><td>15</td><td>0.00657246</td><td>38</td><td>1.20254e-006</td><td>61</td><td>7.16586e-005</td><td>84</td><td>9.36887e-006</td></tr><tr class="text"><td>16</td><td>1.05064e-011</td><td>39</td><td>2.96432e-009</td><td>62</td><td>5.03373e-008</td><td>85</td><td>9.09886e-007</td></tr><tr class="text"><td>17</td><td>1.39281e-007</td><td>40</td><td>1.3197e-005</td><td>63</td><td>4.85524e-006</td><td>86</td><td>2.67906e-005</td></tr><tr class="text"><td>18</td><td>0.000202726</td><td>41</td><td>7.34695e-005</td><td>64</td><td>3.03363e-005</td><td>87</td><td>3.42796e-011</td></tr><tr class="text"><td>19</td><td>0.000742579</td><td>42</td><td>2.07106e-007</td><td>65</td><td>0.000266521</td><td>88</td><td>3.05605e-015</td></tr><tr class="text"><td>20</td><td>1.86975e-012</td><td>43</td><td>1.11753e-008</td><td>66</td><td>2.00038e-010</td><td>89</td><td>2.30648e-012</td></tr><tr class="text"><td>21</td><td>1.6247e-008</td><td>44</td><td>3.86644e-011</td><td>67</td><td>5.01929e-006</td><td> </td><td> </td></tr><tr class="text"><td>22</td><td>3.78952e-011</td><td>45</td><td>0.0145443</td><td>68</td><td>0.00657246</td><td> </td><td> </td></tr><tr><td colspan="7" class="grey right">Total log likelihood of joint reconstruction: </td><td class="grey">-1231.29</td></tr>
</table>

|jrof_output=
<align id="betaretroviridae" 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>4.80258e-006</td><td>23</td><td>6.19938e-006</td><td>46</td><td>5.3106e-008</td><td>69</td><td>6.55895e-006</td></tr><tr class="text"><td>1</td><td>0.00305919</td><td>24</td><td>1.19586e-008</td><td>47</td><td>0.019803</td><td>70</td><td>3.52991e-006</td></tr><tr class="text"><td>2</td><td>0.0015189</td><td>25</td><td>3.35436e-005</td><td>48</td><td>0.000136001</td><td>71</td><td>0.0145634</td></tr><tr class="text"><td>3</td><td>0.0118946</td><td>26</td><td>1.29281e-009</td><td>49</td><td>7.76362e-011</td><td>72</td><td>0.000202842</td></tr><tr class="text"><td>4</td><td>0.00258627</td><td>27</td><td>0.00140306</td><td>50</td><td>2.53036e-007</td><td>73</td><td>0.0118946</td></tr><tr class="text"><td>5</td><td>0.000112604</td><td>28</td><td>2.95329e-008</td><td>51</td><td>5.79879e-010</td><td>74</td><td>0.0030792</td></tr><tr class="text"><td>6</td><td>1.7481e-009</td><td>29</td><td>0.0118946</td><td>52</td><td>2.21796e-006</td><td>75</td><td>0.000480443</td></tr><tr class="text"><td>7</td><td>1.68596e-005</td><td>30</td><td>0.000251009</td><td>53</td><td>1.40242e-008</td><td>76</td><td>1.33051e-005</td></tr><tr class="text"><td>8</td><td>1.10503e-007</td><td>31</td><td>0.051544</td><td>54</td><td>1.77564e-008</td><td>77</td><td>0.00061957</td></tr><tr class="text"><td>9</td><td>0.000425625</td><td>32</td><td>0.0118946</td><td>55</td><td>9.18254e-006</td><td>78</td><td>3.00394e-007</td></tr><tr class="text"><td>10</td><td>1.11153e-007</td><td>33</td><td>3.58359e-007</td><td>56</td><td>0.000453486</td><td>79</td><td>6.39003e-007</td></tr><tr class="text"><td>11</td><td>3.0013e-013</td><td>34</td><td>1.39955e-005</td><td>57</td><td>6.38798e-010</td><td>80</td><td>1.95249e-007</td></tr><tr class="text"><td>12</td><td>1.33671e-010</td><td>35</td><td>1.70167e-008</td><td>58</td><td>2.7485e-008</td><td>81</td><td>1.04134e-007</td></tr><tr class="text"><td>13</td><td>3.91664e-009</td><td>36</td><td>6.38944e-007</td><td>59</td><td>1.17943e-007</td><td>82</td><td>0.000645016</td></tr><tr class="text"><td>14</td><td>0.000170955</td><td>37</td><td>1</td><td>60</td><td>0.068765</td><td>83</td><td>7.92491e-007</td></tr><tr class="text"><td>15</td><td>0.00657451</td><td>38</td><td>1.35694e-006</td><td>61</td><td>7.22384e-005</td><td>84</td><td>2.38657e-005</td></tr><tr class="text"><td>16</td><td>5.43591e-011</td><td>39</td><td>8.51044e-009</td><td>62</td><td>1.66824e-007</td><td>85</td><td>5.63591e-006</td></tr><tr class="text"><td>17</td><td>1.4724e-007</td><td>40</td><td>1.34171e-005</td><td>63</td><td>8.81887e-006</td><td>86</td><td>7.08554e-005</td></tr><tr class="text"><td>18</td><td>0.000202842</td><td>41</td><td>7.61922e-005</td><td>64</td><td>5.56483e-005</td><td>87</td><td>6.22788e-011</td></tr><tr class="text"><td>19</td><td>0.000748945</td><td>42</td><td>3.91918e-007</td><td>65</td><td>0.00027154</td><td>88</td><td>2.54817e-014</td></tr><tr class="text"><td>20</td><td>7.64614e-012</td><td>43</td><td>1.28463e-008</td><td>66</td><td>5.82461e-010</td><td>89</td><td>3.63151e-012</td></tr><tr class="text"><td>21</td><td>4.05446e-008</td><td>44</td><td>8.27136e-011</td><td>67</td><td>6.64935e-006</td><td> </td><td> </td></tr><tr class="text"><td>22</td><td>2.91652e-010</td><td>45</td><td>0.0145634</td><td>68</td><td>0.00657451</td><td> </td><td> </td></tr><tr><td colspan="7" class="grey right">Total log likelihood of joint reconstruction: </td><td class="grey">-1172.67</td></tr>
</table>

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

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

|hmms=
<pre>
>betaretroviridae profile HMM generated consensus sequence
lDTGADvtvIsskqWPtnWPiqktvThLrGIGqAsnPqqSsqlLtWrdkeqnSglikPf
ViPtLPlNLWGRDILsqmkismmslvm
</pre>

|pairwise_alignment=
<pre>
Domain 1 of 1, from 1 to 84: score 42.8, E = 1.3e-13

DTG_ILG template *->vDTGAsvlsviskecklaqklgltrkkafdpSSYvCivtllsysqPs
+DTGA+v +vis ++ + +P+
AP_betaret 1 LDTGADV-TVISSK--QWPT-----------------------NWPI 21

sktsttaqdtirgagGqskiyvSklktsgqirknllslvtikitkGnvTe
+kt t +rg+ Gq ++ + q+ + ll++ + ++G
AP_betaret 22 QKTVTH----LRGI-GQ-AS------NPQQSSQ-LLTWRDKEQNSG---- 54

venrslpsdgvflvvtdpedqksrydvILGrldfLrqlnsvhidl<-*
l ++v++ + + ++Gr d+L+q++ +++ l
AP_betaret 55 -----LIK---PFVIPTL------PLNLWGR-DILSQMKISMMSL 84
</pre>
}}

CAARD:Betaretroviridae - Revision history

imported>Gydbwiki: New page: {{CAARD |pin_output= ((SERV:0.083916,(MPMV:0.005850,SRV-1:0.005850)N3:0.086036)N2:0.183677, (MMTV:0.485878,(RTVL-H3:0.724208,HERV-K10:0.488442)N5:0.110959)N4:0.060627,(SMRV-H:0.239491,JSRV...