{"id":801,"date":"2023-03-21T21:04:23","date_gmt":"2023-03-22T01:04:23","guid":{"rendered":"http:\/\/www.briggsae.org\/?page_id=801"},"modified":"2023-03-21T21:06:39","modified_gmt":"2023-03-22T01:06:39","slug":"table-4-koboldt-et-al-bmc-genomics-2010","status":"publish","type":"page","link":"https:\/\/www.briggsae.org\/?page_id=801","title":{"rendered":"Small Indels (Koboldt et al. BMC Genomics 2010)"},"content":{"rendered":"\n

Table 4 (Small indels) from the paper (DOI: 10.1186\/1471-2164-11-236<\/a>)<\/p>\n\n\n\n\n\n\n\t\n\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\t\n\n\t
Chr<\/th>Indel ID<\/th>Location (cM)<\/th>Ultra_contig<\/th>Predicted indel size (bp)<\/th>AF16 predicted amplicon (bp)<\/th>HK104 predicted amplicon (bp)<\/th>Status<\/th>\n<\/tr>\n<\/thead>\n
1<\/td>bhP41<\/td>unknown<\/td>cb25.fpc4180<\/td>16<\/td>242<\/td>258<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP42<\/td>unknown<\/td>cb25.fpc4184<\/td>15<\/td>252<\/td>267<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP19<\/td>0.7<\/td>cb25.fpc2695<\/td>32<\/td>247<\/td>215<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP43<\/td>14<\/td>cb25.fpc3857b<\/td>12<\/td>245<\/td>257<\/td>Multiple products<\/td>\n<\/tr>\n
<\/td>bhP7<\/td>28.6<\/td>cb25.fpc2032<\/td>7<\/td>246<\/td>239<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP1<\/td>29.2<\/td>cb25.fpc3441<\/td>10<\/td>250<\/td>260<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP29<\/td>~52 <\/td>cb25.fpc4140<\/td>17<\/td>248<\/td>231<\/td>True<\/td>\n<\/tr>\n
2<\/td>bhP20<\/td>2.4<\/td>cb25.fpc4168<\/td>21<\/td>248<\/td>227<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP6<\/td>~8 <\/td>cb25.fpc0071<\/td>11<\/td>973<\/td>962<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP2<\/td>~10 <\/td>cb25.fpc3052a<\/td>7<\/td>243<\/td>236<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP33<\/td>~10 <\/td>cb25.fpc3052a<\/td>44<\/td>245<\/td>201<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP28<\/td>11.9-13.1 <\/td>cb25.fpc0011<\/td>22<\/td>249<\/td>227<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP32<\/td>11.9-13.1 <\/td>cb25.fpc0011<\/td>21<\/td>250<\/td>271<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP21<\/td>23.3-28.6 <\/td>cb25.fpc0058<\/td>20<\/td>251<\/td>231<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP44<\/td>~38 <\/td>cb25.fpc1402a<\/td>12<\/td>312<\/td>324<\/td>Failed PCR in HK104<\/td>\n<\/tr>\n
<\/td>bhP8<\/td>49.9<\/td>cb25.fpc0305<\/td>18<\/td>249<\/td>231<\/td>True<\/td>\n<\/tr>\n
3<\/td>bhP18<\/td>0<\/td>cb25.fpc4010<\/td>8<\/td>248<\/td>256<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP14<\/td>12.5<\/td>cb25.fpc4153<\/td>22<\/td>241<\/td>219<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP38<\/td>16.8-17.5 <\/td>cb25.fpc2187<\/td>44<\/td>249<\/td>293<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP12<\/td>21.2<\/td>cb25.fpc2976<\/td>29<\/td>248<\/td>219<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP34<\/td>21.8<\/td>cb25.fpc2976<\/td>7<\/td>246<\/td>239<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP39<\/td>25.7<\/td>cb25.fpc0201<\/td>13<\/td>250<\/td>263<\/td>Multiple products<\/td>\n<\/tr>\n
<\/td>bhP40<\/td>30<\/td>cb25.fpc0002<\/td>20<\/td>250<\/td>270<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP10<\/td>35.4<\/td>cb25.fpc4224<\/td>11<\/td>249<\/td>238<\/td>No indel<\/td>\n<\/tr>\n
4<\/td>bhP13<\/td>1.9-5.1 <\/td>cb25.fpc3752<\/td>14<\/td>250<\/td>264<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP15<\/td>7.9<\/td>cb25.fpc4250<\/td>20<\/td>250<\/td>270<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP45<\/td>17.6<\/td>cb25.fpc4260<\/td>20<\/td>245<\/td>265<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP4<\/td>18.2-18.8 <\/td>cb25.fpc0039<\/td>9<\/td>250<\/td>241<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP11<\/td>20.6<\/td>cb25.fpc4090<\/td>18<\/td>251<\/td>233<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP9<\/td>31<\/td>cb25.fpc1570<\/td>16<\/td>256<\/td>272<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP16<\/td>43.5<\/td>cb25.fpc0107<\/td>21<\/td>251<\/td>230<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP30<\/td>57.8<\/td>cb25.fpc3052b<\/td>20<\/td>248<\/td>262<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP46<\/td>57.8<\/td>cb25.fpc3052b<\/td>10<\/td>242<\/td>252<\/td>Multiple products<\/td>\n<\/tr>\n
5<\/td>bhP22<\/td>1.9<\/td>cb25.fpc4095<\/td>14<\/td>249<\/td>263<\/td>Inconsistent products<\/td>\n<\/tr>\n
<\/td>bhP31<\/td>2.5-3.2 <\/td>cb25.fpc2114<\/td>24<\/td>244<\/td>268<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP47<\/td>9.6<\/td>cb25.fpc2887a<\/td>21<\/td>243<\/td>222<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP37<\/td>18.9<\/td>cb25.fpc4470<\/td>10<\/td>251<\/td>261<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP5<\/td>26.7<\/td>cb25.fpc0090<\/td>16<\/td>291<\/td>275<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP23<\/td>26.7<\/td>cb25.fpc0090<\/td>22<\/td>250<\/td>228<\/td>Multiple products<\/td>\n<\/tr>\n
<\/td>bhP48<\/td>40.2-40.8 <\/td>cb25.fpc4063<\/td>22<\/td>249<\/td>271<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP24<\/td>56.9<\/td>cb25.fpc0129<\/td>16<\/td>242<\/td>258<\/td>True<\/td>\n<\/tr>\n
X<\/td>bhP25<\/td>8.4<\/td>cb25.fpc0045<\/td>32<\/td>250<\/td>218<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP36<\/td>13.6-16.3 <\/td>cb25.fpc4044b<\/td>11<\/td>244<\/td>255<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP26<\/td>21-21.7 <\/td>cb25.fpc0106<\/td>22<\/td>251<\/td>229<\/td>True<\/td>\n<\/tr>\n
<\/td>bhP49<\/td>34.1<\/td>cb25.fpc0829<\/td>14<\/td>250<\/td>264<\/td>True<\/td>\n<\/tr>\n
<\/td><\/td><\/td><\/td><\/td><\/td><\/td><\/td>\n<\/tr>\n<\/tbody>\n
The table is organized similar to Table 3. The “Status” column shows whether an indel was correctly verified by PCR cases DNA sizes were determined by visual inspection.<\/th>\n<\/tr>\n<\/tfoot>\n<\/table>\n","protected":false},"excerpt":{"rendered":"

Table 4 (Small indels) from the paper (DOI: 10.1186\/1471-2164-11-236)<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_coblocks_attr":"","_coblocks_dimensions":"","_coblocks_responsive_height":"","_coblocks_accordion_ie_support":"","footnotes":""},"class_list":["post-801","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.briggsae.org\/index.php?rest_route=\/wp\/v2\/pages\/801","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.briggsae.org\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.briggsae.org\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.briggsae.org\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.briggsae.org\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=801"}],"version-history":[{"count":3,"href":"https:\/\/www.briggsae.org\/index.php?rest_route=\/wp\/v2\/pages\/801\/revisions"}],"predecessor-version":[{"id":805,"href":"https:\/\/www.briggsae.org\/index.php?rest_route=\/wp\/v2\/pages\/801\/revisions\/805"}],"wp:attachment":[{"href":"https:\/\/www.briggsae.org\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=801"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}