Vector Contamination
At PlantGDB, efforts are undertaken to identify and remove all contaminant DNA so that a clean dataset is made available to researchers. Here, we use the Vmatch program (with options d -p -l 50 -exdrop 1 -identity 90-) to screen EST sequences against UniVec for vector contaminations . The table below summarizes the total count of "vector contamination".
To view a list of sequences flagged as contaminated, click on the number in the "Sequence Count" column.
| Organism | Contamination_Type | Sequence Count |
|---|---|---|
| Centaurea_maculosa | Vector | 20 |
| Centaurea_solstitialis | Vector | 6 |
| Centella_asiatica | Vector | 257 |
| Ceratodon_purpureus | Vector | 2 |
| Ceratonia_siliqua | Vector | 17 |
| Ceratopteris_richardii | Vector | 80 |
| Chamaecyparis_formosensis | Vector | 82 |
| Chamaecyparis_obtusa | Vector | 5 |
| Chenopodium_album | Vector | 1 |
| Chimonanthus_praecox | Vector | 4 |
| Chlamydomonas_incerta | Vector | 289 |
| Chlamydomonas_reinhardtii | Vector | 4936 |
| Chlamydomonas_sp__CCMP681 | Vector | 2 |
| Chlamydomonas_sp__HS_5 | Vector | 21 |
| Chlamydomonas_sp__W80 | Vector | 5 |
| Chlorella_variabilis | Vector | 13 |
| Chlorella_vulgaris | Vector | 1 |
| Chloris_virgata | Vector | 10 |
| Chlorophytum_borivilianum | Vector | 94 |
| Chrysanthemum_x_morifolium | Vector | 5 |
| Cicer_arietinum | Vector | 3859 |
| Cicer_microphyllum | Vector | 11 |
| Cichorium_intybus | Vector | 24 |
| Cirsium_arvense | Vector | 3 |
| Cistus_creticus_subsp__creticus | Vector | 29 |
| Citrullus_lanatus | Vector | 9 |
| Citrullus_lanatus_subsp__vulgaris | Vector | 9 |
| Citrus_aurantiifolia | Vector | 307 |
| Citrus_aurantium | Vector | 227 |
| Citrus_clementina | Vector | 1469 |
| Citrus_clementina_x_Citrus_tangerina | Vector | 20 |
| Citrus_hassaku | Vector | 2 |
| Citrus_jambhiri | Vector | 1 |
| Citrus_latifolia | Vector | 212 |
| Citrus_limettioides | Vector | 277 |
| Citrus_limon | Vector | 55 |
| Citrus_limonia | Vector | 818 |
| Citrus_macrophylla | Vector | 24 |
| Citrus_medica | Vector | 29 |
| Citrus_nobilis_x_Citrus_kinokuni | Vector | 25 |
| Citrus_reshni | Vector | 124 |
| Citrus_reticulata | Vector | 553 |
| Citrus_reticulata_x_Citrus_temple | Vector | 83 |
| Citrus_sinensis | Vector | 4106 |
| Citrus_sinensis_x_Citrus_trifoliata | Vector | 22 |
| Citrus_sunki | Vector | 350 |
| Citrus_tamurana | Vector | 1 |
| Citrus_trifoliata | Vector | 2053 |
| Citrus_unshiu | Vector | 349 |
| Citrus_x_paradisi | Vector | 35 |
| Citrus_x_paradisi_x_Citrus_trifoliata | Vector | 4 |
| Closterium_peracerosum_strigosum_littorale_complex | Vector | 51 |
| Coccomyxa_subellipsoidea_C_169 | Vector | 108 |
| Cocos_nucifera | Vector | 4 |
| Codonopsis_lanceolata | Vector | 20 |
| Coffea_arabica | Vector | 2 |
| Coffea_canephora | Vector | 256 |
| Coffea_canephora_x_Coffea_congensis | Vector | 1 |
| Coffea_hybrid_cultivar | Vector | 1 |
| Coleochaete_orbicularis | Vector | 172 |
| Coleochaete_scutata | Vector | 51 |
| Copaifera_officinalis | Vector | 3 |
| Corchorus_capsularis | Vector | 55 |
| Corchorus_olitorius | Vector | 1 |
| Costus_pulverulentus_x_Costus_scaber | Vector | 7 |
| Crocus_sativus | Vector | 276 |
| Cryptomeria_japonica | Vector | 112 |
| Cucumis_melo | Vector | 57 |
| Cucumis_melo_subsp__agrestis | Vector | 346 |
| Cucumis_melo_subsp__melo | Vector | 1244 |
| Cucumis_sativus | Vector | 619 |
| Cucurbita_maxima | Vector | 6 |
| Cunninghamia_lanceolata | Vector | 15 |
| Cuphea_paucipetala | Vector | 34 |
| Curcuma_longa | Vector | 109 |
| Cyamopsis_tetragonoloba | Vector | 57 |
| Cycas_rumphii | Vector | 437 |
| Cyclamen_persicum | Vector | 26 |
| Cymbidium_grandiflorum | Vector | 2 |
| Cynodon_dactylon | Vector | 1428 |
| Cynodon_x_magennisii | Vector | 2 |
| Dactylis_glomerata | Vector | 1711 |
| Daucus_carota | Vector | 2 |
| Daucus_carota_subsp__sativus | Vector | 2 |
| Deschampsia_antarctica | Vector | 11 |
| Dianthus_caryophyllus | Vector | 6 |
| Dianthus_chinensis | Vector | 1 |
| Dimocarpus_longan | Vector | 1 |
| Dioscorea_alata | Vector | 211 |
| Dunaliella_salina | Vector | 259 |
| Elaeis_guineensis | Vector | 122 |
| Elaeis_oleifera | Vector | 121 |
| Eleusine_coracana | Vector | 47 |
| Eleusine_coracana_subsp__africana | Vector | 1 |
| Elymus_wawawaiensis_Elymus_lanceolatus_mixed_EST_library | Vector | 618 |
| Eragrostis_curvula | Vector | 242 |
| Eragrostis_pilosa | Vector | 25 |
| Eragrostis_tef | Vector | 45 |
| Erysimum_linifolium | Vector | 3 |
| Eschscholzia_californica | Vector | 18 |