In this section

40 pangenome_drosophila Cactus

This alignment has been generated in Ensembl Metazoa release 61 and is composed of 88,350 blocks (up to 18,414 bp long).

API access

This alignment set can be accessed using the Compara API via the Bio::EnsEMBL::DBSQL::MethodLinkSpeciesSetAdaptor using the method_link_type "CACTUS_DB" and the species_set_name "collection-pangenome_drosophila".

SpeciesAssemblyGenome length (bp)Genome coverage (bp)Genome coverage (%)Coding exon length (bp)Coding exon coverage (bp)Coding exon coverage (%)
Drosophila melanogaster (Fruit fly) - GCA_000001215.4 [FlyBase annotation] (Drosophila melanogaster)BDGP6.54143,726,00297,409,98267.7722,955,92821,261,12892.62
Drosophila sechellia (Fruit fly, sech25) (Drosophila sechellia)ASM438219v2153,084,57195,634,44862.4723,087,94220,963,20590.80
Drosophila mauritiana (Fruit fly, mau12) (Drosophila mauritiana)ASM438214v1152,313,26695,710,38862.8422,941,18720,917,47791.18
Drosophila simulans (Fruit fly, w501) (Drosophila simulans)Prin_Dsim_3.1131,663,59095,876,40672.8223,238,24321,062,84890.64
Drosophila erecta (Fruit fly, 14021-0224.00,06,07) (Drosophila erecta)DereRS2146,538,39794,049,41164.1822,591,37220,675,66391.52
Drosophila santomea (Fruit fly, STO CAGO 1482) (Drosophila santomea)Prin_Dsan_1.1146,800,52295,316,06964.9323,158,08920,823,67789.92
Drosophila yakuba (Fruit fly, Tai18E2) (Drosophila yakuba)Prin_Dyak_Tai18E2_2.1147,899,11795,192,57364.3623,334,52420,902,83989.58
Drosophila teissieri (Fruit fly, GT53w) (Drosophila teissieri)Prin_Dtei_1.1149,494,47195,691,08064.0123,459,55720,730,54688.37
Drosophila eugracilis (Fruit fly, 14026-0451.02) (Drosophila eugracilis)ASM1815383v1164,811,30793,840,17056.9423,108,52820,452,74188.51
Drosophila suzukii (Fruit fly, WT3_2.0) (Drosophila suzukii)LBDM_Dsuz_2.1.pri268,012,15698,509,93236.7624,645,29420,452,74182.99
Drosophila subpulchrella (Fruit fly, 33 F10 #4) (Drosophila subpulchrella)RU_Dsub_v1.1265,153,78999,207,82037.4223,997,91320,482,96885.35
Drosophila biarmipes (Fruit fly, raj3) (Drosophila biarmipes)RU_DBia_V1.1193,597,86395,472,92849.3223,514,10720,504,42587.20
Drosophila takahashii (Fruit fly, IR98-3 E-12201) (Drosophila takahashii)ASM1815269v1165,528,34697,977,20559.1923,643,73220,193,70885.41
Drosophila gunungcola (Fruit fly, Sukarami) (Drosophila gunungcola)Dgunungcola_SK_2189,841,95598,506,96151.8923,000,69620,245,98488.02
Drosophila elegans (Fruit fly) (Drosophila elegans)Dele_2.0171,267,66998,110,03057.2824,361,38320,182,66782.85
Drosophila rhopaloa (Fruit fly, 14029-0021.01) (Drosophila rhopaloa)ASM1815211v1193,508,23197,759,03550.5223,825,93220,330,69685.33
Drosophila ficusphila (Fruit fly, 14025-0441.05) (Drosophila ficusphila)ASM1815226v1167,832,93192,418,93855.0723,377,93820,241,65286.58
Drosophila kikkawai (Fruit fly, 14028-0561.14) (Drosophila kikkawai)ASM1815253v1188,799,86390,897,47648.1424,134,08219,795,75782.02
Drosophila bipectinata (Fruit fly) (Drosophila bipectinata)Dbip_2.0167,263,95879,657,64347.6223,667,57419,478,95882.30
Drosophila ananassae (Fruit fly, 14024-0371.13) (Drosophila ananassae)ASM1763931v2213,817,54580,337,48137.5724,452,74019,794,80280.95
Drosophila guanche (Fruit fly) (Drosophila guanche)DGUA_6140,632,98174,209,75852.7722,462,85819,183,60385.40
Drosophila subobscura (Fruit fly, 14011-0131.10) (Drosophila subobscura)UCBerk_Dsub_1.0126,248,01775,765,92460.0122,568,56219,177,94584.98
Drosophila obscura (Fruit fly, BZ-5 IFL) (Drosophila obscura)ASM1815110v1179,834,23279,004,07743.9323,961,36819,235,93480.28
Drosophila miranda (Fruit fly, MSH22) (Drosophila miranda)D.miranda_PacBio2.1287,096,00077,792,49027.1029,313,61319,196,52865.49
Drosophila persimilis (Fruit fly, 14011-0111.01,24,50) (Drosophila persimilis)DperRS2195,512,97277,199,74039.4923,610,34919,061,15480.73
Drosophila pseudoobscura (Fruit fly, MV2-25) (Drosophila pseudoobscura)UCI_Dpse_MV25163,282,96977,582,13947.5123,940,10619,432,19481.17
Drosophila willistoni (Fruit fly, 14030-0811.24) (Drosophila willistoni)UCI_dwil_1.1246,985,53857,870,69223.4324,051,65118,447,13876.70
Drosophila busckii (Fruit fly, San Diego stock center stock number 13000-0081.31) (Drosophila busckii)ASM1175060v1118,492,36248,259,05240.7321,064,81917,399,86282.60
Drosophila grimshawi (Fruit fly, 15287-2541.00) (Drosophila grimshawi)ASM1815329v1191,382,97855,715,88129.1121,946,38318,024,58082.13
Drosophila arizonae (Fruit fly, ariz_Son04) (Drosophila arizonae)ASM165402v1141,386,80051,018,79236.0820,891,52017,256,48682.60
Drosophila mojavensis (Fruit fly, 15081-1352.22) (Drosophila mojavensis)ASM1815372v1163,170,72154,733,33433.5422,712,74018,200,62280.13
Drosophila navojoa (Fruit fly, navoj_Jal97) (Drosophila navojoa)UFRJ_Dnav_4.2147,357,60353,705,64536.4521,446,01717,878,75183.37
Drosophila hydei (Fruit fly, 15085-1641.00,03,60) (Drosophila hydei)DhydRS2153,741,57453,007,43434.4822,456,33017,915,05879.78
Drosophila virilis (Fruit fly, 15010-1051.48,49,85) (Drosophila virilis)DvirRS2189,443,82954,383,49728.7123,186,84518,277,68078.83
Drosophila albomicans (Fruit fly, 15112-1751.03) (Drosophila albomicans)ASM965048v2167,525,81455,476,52933.1223,632,62518,223,83677.11
Drosophila innubila (Fruit fly, TH190305) (Drosophila innubila)UK_Dinn_1.0167,978,03156,717,67833.7622,417,96517,941,08580.03
Bactrocera neohumeralis (Lesser Queensland fruit fly, Rockhampton) (Bactrocera neohumeralis)APGP_CSIRO_Bneo_wtdbg2_racon_allhic_juicebox.fasta_v2577,342,53617,469,2953.0324,088,79513,687,04956.82
Machimus atricapillus (Kite-tailed Robberfly, reference) (Machimus atricapillus)idMacAtri3.1268,627,74414,426,5155.3718,227,50410,279,41556.40
Coremacera marginata (Sieve-winged Snailkiller, reference) (Coremacera marginata)idCorMarg1.1979,662,36514,924,9561.5222,145,38712,031,54254.33
Myopa tessellatipennis (Thick-headed flies, reference) (Myopa tessellatipennis)idMyoTess1.1249,257,48214,851,1605.9620,550,01311,942,26058.11

Block size distribution

Size range All 88,350 alignment blocks
# blocks Total size (incl. gaps)
10 bp - 100 bp
6,794
270.8 kb
100 bp - 1 kb
18,088
9.0 Mb
1 kb - 10 kb
59,023
224.6 Mb
10 kb - 100 kb
4,445
60.6 Mb