1 encode Encode regions Regions that were examined in the Encode pilot project. 1877426
2 genomicctg Genomic contigs The largest contigs constructed by the Genome Reference Consortium, GRC, for this genomic assembly. 100530253
3 tilepath Tilepath BAC clones upon which the current genomic assembly was based. Colours indicate a finished sequence (gold clones), phase 1 sequencing (dark pink), phase 0 (light pink) or other (grey). Clones that have been fluorescence in situ hybridisation (FISH) mapped are marked with a black triangle in the top left corner. If a clone is shown in outline, the mapping to the genome is problematic and the true length may not be displayed. 1071649
9 encode_excluded ENCODE excluded regions Genomic regions that have been identified as problematic in the human genome by the ENCODE project. These regions contain abnormally high unique-mapping read coverage signal in open chromatin and control/input datasets across many cell lines and are classified as dispersed high mappability artifacts, dispersed low mappability artifacts, satellite repeats, centromeric repeats, telomeric repeats or snRNA repeats. 4132352
10 bac_map BAC map Full list of mapped BAC clones 500000
11 ASSEMBLY WGS/Clones assembly The tiling path of clones and WGS contigs 1000000
12 bacs BACs BACs 13738670
13 gap gaps \N 44494
14 matepairs Mate pairs Inconsistent mate pairs 21557510
15 atag_CLE Assembly tag Clone_left_end 1000000
16 atag_CRE Assembly tag Clone_right_end 1000000
17 atag_Misc Assembly tag Misc 1000000
18 atag_Unsure Assembly tag Unsure 1000000
19 CHORI-17 CHORI-17 library Mapped clone end sequences from human CHORI-17 BAC library (CH17) 18090412
20 RPCI-11 RPCI-11 library Mapped clone end sequences from human RPCI-11 BAC library (RP11) 18084827
21 ABC ABC libraries Mapped clone end sequences from ABCs (ABC7, ABC8, ABC9, ABC10, ABC11, ABC12, ABC13, ABC14, ABC16, ABC21, ABC22, ABC24, ABC27) human fosmid libraries (ABC) 18047227
22 WIBR-2 WIBR-2 library Mapped clone end sequences from WIBR-2 human fosmid library (WI2) 18043599
23 CH243 CHORI-243 library Mapped clone end sequences from sheep CHORI-243 BAC library (CH243) 197393133
59 RP71_clones RP71 zebrafish clones RP71 library of clones for zebrafish 0
60 DKEYP_clones DKEYP zebrafish clones DKEYP library of clones for zebrafish 0
61 DKEY_clones DKEY zebrafish clones DKEY library of clones for zebrafish 0
62 CH211_clones CH211 zebrafish clones CH211 library of clones for zebrafish 0
63 CH73_clones CH73 zebrafish clones CH73 library of clones for zebrafish 0
64 ZFOS_clones ZFOS zebrafish clones ZFOS library of clones for zebrafish 0
65 CH1073_clones CH1073 zebrafish clones CH1073 library of clones for zebrafish 0
70 CH26_clones CH26 mouse clones CH26 library of clones for mouse 0
71 CH28_clones CH28 mouse clones CH28 library of clones for mouse 0
72 CH33_clones CH33 mouse clones CH33 library of clones for mouse 0
73 CH36_clones CH36 mouse clones CH36 library of clones for mouse 0
74 CH34_clones CH34 mouse clones CH34 library of clones for mouse 0
75 CT7_clones CT7 mouse clones CT7 library of clones for mouse 0
76 CH25_clones CH25 mouse clones CH25 library of clones for mouse 0
77 MM_DBa_clones MM_DBa mouse clones MM_DBa library of clones for mouse 0
78 RP22_clones RP22 mouse clones RP22 library of clones for mouse 0
79 RP21_clones RP21 mouse clones RP21 library of clones for mouse 0
80 MHPP_clones MHPP mouse clones MHPP library of clones for mouse 0
81 C3H_clones C3H mouse clones C3H library of clones for mouse 0
82 RP24_clones RP24 mouse clones RP24 library of clones for mouse 0
83 bMQ_clones bMQ mouse clones bMQ library of clones for mouse 0
84 CH29_clones CH29 mouse clones CH29 library of clones for mouse 0
85 MHPN_clones MHPN mouse clones MHPN library of clones for mouse 0
86 RP23_clones RP23 mouse clones RP23 library of clones for mouse 0
87 MSMg01_clones MSMg01 mouse clones MSMg01 library of clones for mouse 0
88 B6Ng01_clones B6Ng01 mouse clones B6Ng01 library of clones for mouse 0
89 DN_clones DN mouse clones DN library of clones for mouse 0
90 WI1_clones WI1 mouse clones WI1 library of clones for mouse 0
6 cloneset_30k 30k clone set Clone positions were determined by a Wellcome Trust Sanger Institute internal project. 344400
4 cloneset_1mb 1Mb clone set Clones were selected at approximately 1MB intervals in the genome to help identify breakpoints of chromosomal rearrangements. Fluorescence in situ hybridisation (FISH) mapped clones are marked by a black triangle in the upper left corner. Gold clones are also in the tilepath. 287873
5 cloneset_32k 32k clone set Clones were re-arrayed by and available at CHORI. Fluorescence in situ hybridisation (FISH) mapped clones are marked by a black triangle in the upper left corner. Gold clones are also in the tilepath. 299090