imported>Gydbwiki: New page: {{CAARD |pin_output= (FeLV:0.074252,(BAEVM:0.177409,((Herv.E:0.330059,RTVL.H3:0.397258)N4:0.043729,((MdEV:0.117158,(KorV:0.051457,GALV:0.041148)N7:0.023153) N6:0.106950,(PERV.MSL:0.162721,...

2009-05-08T12:00:00Z

New page: {{CAARD |pin_output= (FeLV:0.074252,(BAEVM:0.177409,((Herv.E:0.330059,RTVL.H3:0.397258)N4:0.043729,((MdEV:0.117158,(KorV:0.051457,GALV:0.041148)N7:0.023153) N6:0.106950,(PERV.MSL:0.162721,...

New page

{{CAARD
|pin_output=
(FeLV:0.074252,(BAEVM:0.177409,((Herv.E:0.330059,RTVL.H3:0.397258)N4:0.043729,((MdEV:0.117158,(KorV:0.051457,GALV:0.041148)N7:0.023153) N6:0.106950,(PERV.MSL:0.162721,(Q88269:0.335537,REV:0.226503)N9:0.044583)N8:0.024222)N5:0.040673)N3:0.035644)N2:0.051896, (CHO.K1:0.122359,MuLV:0.079455)N10:0.006934);

|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>FeLV</td><td>N1</td><td>0.0742518</td><td>-</td></tr><tr><td>BAEVM</td><td>N2</td><td>0.177409</td><td>-</td></tr><tr><td>Herv.E</td><td>N4</td><td>0.330059</td><td>-</td></tr><tr><td>RTVL.H3</td><td>N4</td><td>0.397258</td><td>-</td></tr><tr><td>MdEV</td><td>N6</td><td>0.117158</td><td>-</td></tr><tr><td>KorV</td><td>N7</td><td>0.0514574</td><td>-</td></tr><tr><td>GALV</td><td>N7</td><td>0.0411484</td><td>-</td></tr><tr><td>PERV.MSL</td><td>N8</td><td>0.162721</td><td>-</td></tr><tr><td>Q88269</td><td>N9</td><td>0.335537</td><td>-</td></tr><tr><td>REV</td><td>N9</td><td>0.226503</td><td>-</td></tr><tr><td>CHO.K1</td><td>N10</td><td>0.122359</td><td>-</td></tr><tr><td>MuLV</td><td>N10</td><td>0.0794548</td><td>-</td></tr><tr><td>N1</td><td>root!</td><td>-</td><td>FeLV N2 N10</td></tr><tr><td>N2</td><td>N1</td><td>0.0518959</td><td>BAEVM N3</td></tr><tr><td>N3</td><td>N2</td><td>0.035644</td><td>N4 N5</td></tr><tr><td>N4</td><td>N3</td><td>0.0437293</td><td>Herv.E RTVL.H3</td></tr><tr><td>N5</td><td>N3</td><td>0.0406726</td><td>N6 N8</td></tr><tr><td>N6</td><td>N5</td><td>0.10695</td><td>MdEV N7</td></tr><tr><td>N7</td><td>N6</td><td>0.0231535</td><td>KorV GALV</td></tr><tr><td>N8</td><td>N5</td><td>0.0242217</td><td>PERV.MSL N9</td></tr><tr><td>N9</td><td>N8</td><td>0.044583</td><td>Q88269 REV</td></tr><tr><td>N10</td><td>N1</td><td>0.00693423</td><td>CHO.K1 MuLV</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>7.0903e-006</td><td>17</td><td>2.06774e-013</td><td>34</td><td>3.02075e-012</td><td>51</td><td>0.00843806</td></tr><tr class="text"><td>1</td><td>0.00409784</td><td>18</td><td>7.15108e-010</td><td>35</td><td>1.36025e-009</td><td>52</td><td>1.14077e-013</td></tr><tr class="text"><td>2</td><td>0.00225569</td><td>19</td><td>2.04809e-015</td><td>36</td><td>1.69932e-016</td><td>53</td><td>0.00843806</td></tr><tr class="text"><td>3</td><td>0.000643944</td><td>20</td><td>2.53548e-012</td><td>37</td><td>0.000255183</td><td>54</td><td>0.0179303</td></tr><tr class="text"><td>4</td><td>0.00369529</td><td>21</td><td>3.59202e-017</td><td>38</td><td>1.98331e-008</td><td>55</td><td>0.0179303</td></tr><tr class="text"><td>5</td><td>3.18526e-011</td><td>22</td><td>0.0148059</td><td>39</td><td>7.03591e-016</td><td>56</td><td>0.000349375</td></tr><tr class="text"><td>6</td><td>0.001388</td><td>23</td><td>6.82992e-006</td><td>40</td><td>4.92131e-005</td><td>57</td><td>0.00421309</td></tr><tr class="text"><td>7</td><td>5.01132e-005</td><td>24</td><td>1.32317e-008</td><td>41</td><td>1.83262e-008</td><td>58</td><td>0.0003562</td></tr><tr class="text"><td>8</td><td>0.000127597</td><td>25</td><td>0.0148059</td><td>42</td><td>0.001388</td><td>59</td><td>0.000895871</td></tr><tr class="text"><td>9</td><td>2.04489e-005</td><td>26</td><td>2.70036e-009</td><td>43</td><td>2.20665e-005</td><td>60</td><td>0.0179303</td></tr><tr class="text"><td>10</td><td>3.71639e-015</td><td>27</td><td>7.62572e-007</td><td>44</td><td>0.0083459</td><td>61</td><td>1.34406e-008</td></tr><tr class="text"><td>11</td><td>7.06709e-020</td><td>28</td><td>1.39203e-018</td><td>45</td><td>0.0179303</td><td>62</td><td>0.00653438</td></tr><tr class="text"><td>12</td><td>5.66295e-010</td><td>29</td><td>1.01238e-010</td><td>46</td><td>1.58679e-012</td><td>63</td><td>0.000263054</td></tr><tr class="text"><td>13</td><td>7.01289e-006</td><td>30</td><td>9.11851e-013</td><td>47</td><td>5.15942e-007</td><td>64</td><td>7.15299e-014</td></tr><tr class="text"><td>14</td><td>9.60083e-013</td><td>31</td><td>1.12326e-010</td><td>48</td><td>0.00843806</td><td>65</td><td>1.10447e-006</td></tr><tr class="text"><td>15</td><td>3.14686e-011</td><td>32</td><td>2.84939e-006</td><td>49</td><td>2.48944e-008</td><td>66</td><td>4.75669e-010</td></tr><tr class="text"><td>16</td><td>2.13334e-015</td><td>33</td><td>2.47728e-009</td><td>50</td><td>0.00485142</td><td>67</td><td>1.62086e-005</td></tr><tr><td colspan="7" class="grey right">Total log likelihood of joint reconstruction: </td><td class="grey">-1116.14</td></tr>
</table>

|jrof_output=
<align id="gammaretroviridae" 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>7.51965e-006</td><td>17</td><td>6.17775e-013</td><td>34</td><td>5.70703e-012</td><td>51</td><td>0.00843862</td></tr><tr class="text"><td>1</td><td>0.00410181</td><td>18</td><td>1.04178e-009</td><td>35</td><td>1.42824e-009</td><td>52</td><td>3.41556e-013</td></tr><tr class="text"><td>2</td><td>0.00225731</td><td>19</td><td>6.31039e-015</td><td>36</td><td>2.37055e-016</td><td>53</td><td>0.00843862</td></tr><tr class="text"><td>3</td><td>0.000648327</td><td>20</td><td>5.65637e-012</td><td>37</td><td>0.000257423</td><td>54</td><td>0.0179351</td></tr><tr class="text"><td>4</td><td>0.00369849</td><td>21</td><td>4.02912e-016</td><td>38</td><td>2.76715e-008</td><td>55</td><td>0.0179351</td></tr><tr class="text"><td>5</td><td>4.0397e-011</td><td>22</td><td>0.014807</td><td>39</td><td>2.1986e-015</td><td>56</td><td>0.000350442</td></tr><tr class="text"><td>6</td><td>0.00138817</td><td>23</td><td>6.99298e-006</td><td>40</td><td>4.97564e-005</td><td>57</td><td>0.00421537</td></tr><tr class="text"><td>7</td><td>5.03437e-005</td><td>24</td><td>1.44632e-008</td><td>41</td><td>2.75158e-008</td><td>58</td><td>0.00035981</td></tr><tr class="text"><td>8</td><td>0.000129386</td><td>25</td><td>0.014807</td><td>42</td><td>0.00138817</td><td>59</td><td>0.000903306</td></tr><tr class="text"><td>9</td><td>2.0931e-005</td><td>26</td><td>1.52431e-008</td><td>43</td><td>2.23159e-005</td><td>60</td><td>0.0179351</td></tr><tr class="text"><td>10</td><td>1.0065e-014</td><td>27</td><td>1.07891e-006</td><td>44</td><td>0.0083468</td><td>61</td><td>3.19135e-008</td></tr><tr class="text"><td>11</td><td>1.79617e-019</td><td>28</td><td>3.1275e-018</td><td>45</td><td>0.0179351</td><td>62</td><td>0.0065381</td></tr><tr class="text"><td>12</td><td>6.05901e-010</td><td>29</td><td>3.30667e-010</td><td>46</td><td>1.90698e-012</td><td>63</td><td>0.000264099</td></tr><tr class="text"><td>13</td><td>7.03905e-006</td><td>30</td><td>3.63885e-012</td><td>47</td><td>7.51521e-007</td><td>64</td><td>2.32844e-013</td></tr><tr class="text"><td>14</td><td>1.12063e-012</td><td>31</td><td>1.55851e-010</td><td>48</td><td>0.00843862</td><td>65</td><td>1.12541e-006</td></tr><tr class="text"><td>15</td><td>3.3123e-011</td><td>32</td><td>3.46562e-006</td><td>49</td><td>5.77459e-008</td><td>66</td><td>1.69647e-009</td></tr><tr class="text"><td>16</td><td>3.80101e-015</td><td>33</td><td>3.70343e-009</td><td>50</td><td>0.00485144</td><td>67</td><td>1.65441e-005</td></tr><tr><td colspan="7" class="grey right">Total log likelihood of joint reconstruction: </td><td class="grey">-1091.89</td></tr>
</table>

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

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

|hmms=
<pre>
>AP_gammaretroviridae profile HMM generated consensus sequence
vDtgAeHsvltqpplssktaviGatGqkqypwttkvqlgkvtHsFLviPecPlPLLgRd
lLtKLkaqi
</pre>

|pairwise_alignment=
<pre>
Domain 1 of 1, from 1 to 68: score 45.0, E = 2.8e-14

DTG_ILG template *->vDTGAsvlsviskecklaqklgltrkkafdpSSYvCivtllsysqPs
vDTGA++ sv++ + + s
AP_gammare 1 VDTGAEH-SVLT-------QPP-----------------------LS 16

sktsttaqdtirgagGqskiyvSklktsgqirknllslvtikitkGnvTe
skt + ga Gq+++ +++ +++++ G
AP_gammare 17 SKTA------VIGATGQKQY-------PWT--------TKVQL--G---- 39

venrslpsdgvflvvtdpedqksrydvILGrldfLrqlnsvhidl<-*
+ +++ flv+ pe+ + +LGr d+L++l+ ++
AP_gammare 40 ----KVTHS--FLVI--PEC----PLPLLGR-DLLTKLK---AQI 68
</pre>
}}

CAARD:Gammaretroviridae - Revision history

imported>Gydbwiki: New page: {{CAARD |pin_output= (FeLV:0.074252,(BAEVM:0.177409,((Herv.E:0.330059,RTVL.H3:0.397258)N4:0.043729,((MdEV:0.117158,(KorV:0.051457,GALV:0.041148)N7:0.023153) N6:0.106950,(PERV.MSL:0.162721,...