VGP - Vertebrate Genomes Project assembly hubs, track statistics

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This assembly hub contains assemblies released by the Vertebrate Genomes Project. (set of trio assemblies, maternal/paternal)

See also: hub accessassembly statistics


Data resource links

NOTE: Click on the column headers to sort the table by that column
The link to genome browser will attach only that single assembly to the genome browser.
The numbers are: item count (percent coverage)
Except for the gc5Base column which is: overall GC % average (percent coverage)
count common name
link to genome browser
ncbiRefSeq ncbiGene xenoRefGene augustus
genes
Ensembl
genes
gc5 base AGP
gap
all
gaps
assembly
sequences
Repeat
Masker
TRF
simpleRepeat
window
Masker
gap
Overlap
tandem
Dups
cpg
unmasked
cpg
island
1 African grass rat (maternal 2020)
GCA_011750645.1
n/a n/a 20,916
(2.01 %)
19,513
(1.43 %)
n/a 41.37
(98.89 %)
0
(0 %)
1,526
(1.11 %)
1,610
(100.00 %)
4,928,847
(37.45 %)
1,652,295
(5.20 %)
13,507,965
(32.27 %)
0
(0 %)
1,023,525
(1.96 %)
17,712
(0.51 %)
16,897
(0.46 %)
2 African grass rat (paternal X 2020)
GCF_011762505.1
45,963
(2.46 %)
n/a 20,878
(1.99 %)
19,613
(1.43 %)
n/a 41.39
(99.19 %)
0
(0 %)
1,624
(0.81 %)
1,595
(100.00 %)
4,939,557
(37.33 %)
1,674,970
(5.40 %)
13,613,429
(32.71 %)
2
(0.00 %)
1,065,249
(2.09 %)
17,767
(0.51 %)
16,852
(0.46 %)
3 African grass rat (paternal 2020)
GCA_011762545.1
n/a n/a 20,796
(2.00 %)
19,611
(1.43 %)
n/a 41.42
(97.70 %)
0
(0 %)
1,563
(2.30 %)
1,740
(100.00 %)
4,904,243
(37.25 %)
1,672,608
(5.37 %)
13,465,246
(32.19 %)
1
(0.00 %)
1,034,950
(2.07 %)
17,677
(0.50 %)
16,772
(0.46 %)
4 budgerigar (maternal)
GCA_012275265.1
n/a n/a 12,659
(1.89 %)
22,063
(2.28 %)
n/a 41.89
(94.20 %)
0
(0 %)
388
(5.80 %)
930
(100.00 %)
504,677
(9.95 %)
268,616
(3.12 %)
5,481,198
(20.78 %)
1
(0.00 %)
317,306
(2.01 %)
20,278
(1.55 %)
16,758
(1.05 %)
5 budgerigar (paternal)
GCA_012275275.1
n/a n/a 13,127
(1.94 %)
22,492
(2.30 %)
n/a 41.84
(98.98 %)
0
(0 %)
737
(1.02 %)
330
(100.00 %)
505,478
(9.66 %)
231,633
(2.15 %)
5,778,405
(20.30 %)
0
(0 %)
277,857
(1.78 %)
20,205
(1.61 %)
17,519
(1.14 %)
6 budgerigar (paternal Z)
GCF_012275295.1
32,026
(4.32 %)
n/a 13,239
(1.87 %)
23,063
(2.25 %)
n/a 41.80
(99.72 %)
0
(0 %)
284
(0.28 %)
864
(100.00 %)
538,374
(10.19 %)
279,504
(3.12 %)
5,874,531
(22.08 %)
1
(0.00 %)
324,793
(2.05 %)
21,155
(1.61 %)
17,590
(1.10 %)
7 common bottlenose dolphin (paternal 2020)
GCA_011762515.1
n/a n/a 18,537
(1.77 %)
20,619
(1.44 %)
n/a 41.42
(98.08 %)
0
(0 %)
868
(1.92 %)
1,166
(100.00 %)
3,997,801
(45.93 %)
609,838
(1.85 %)
12,400,272
(34.53 %)
1
(0.00 %)
649,569
(1.73 %)
64,630
(1.84 %)
42,623
(1.32 %)
8 common bottlenose dolphin (maternal 2020)
GCA_011762535.1
n/a n/a 18,837
(1.77 %)
20,857
(1.43 %)
n/a 41.43
(99.73 %)
0
(0 %)
649
(0.27 %)
985
(100.00 %)
4,073,893
(46.15 %)
630,039
(2.15 %)
12,628,219
(35.41 %)
1
(0.00 %)
705,496
(1.85 %)
65,379
(1.89 %)
42,994
(1.34 %)
9 common bottlenose dolphin (maternal Y refseq 2020)
GCF_011762595.1
67,207
(3.31 %)
n/a 18,766
(1.77 %)
20,528
(1.42 %)
n/a 41.44
(99.74 %)
0
(0 %)
674
(0.26 %)
362
(100.00 %)
4,069,115
(46.17 %)
628,982
(2.12 %)
12,490,891
(35.29 %)
1
(0.00 %)
629,903
(1.85 %)
65,551
(1.90 %)
43,136
(1.35 %)
10 sterlet (maternal 2020)
GCA_902713425.1
n/a n/a 22,306
(1.80 %)
33,366
(4.09 %)
n/a 39.56
(99.99 %)
0
(0 %)
402
(0.01 %)
245
(100.00 %)
1,126,738
(3.36 %)
889,853
(6.73 %)
8,766,715
(39.22 %)
4
(0.00 %)
1,059,859
(5.24 %)
51,356
(1.84 %)
13,633
(0.35 %)
11 sterlet (paternal 2020)
GCA_902713435.1
n/a n/a 22,718
(1.81 %)
34,093
(4.15 %)
n/a 39.60
(100.00 %)
0
(0 %)
422
(0.01 %)
224
(100.00 %)
1,145,503
(3.39 %)
912,936
(6.84 %)
8,839,174
(39.17 %)
4
(0.00 %)
1,099,124
(5.35 %)
52,560
(1.82 %)
14,166
(0.36 %)
12 white-tufted-ear marmoset (maternal 2020)
GCA_011078405.1
n/a n/a 21,684
(1.92 %)
21,053
(1.29 %)
n/a 40.97
(99.58 %)
0
(0 %)
1,068
(0.42 %)
216
(100.00 %)
5,099,933
(50.01 %)
797,450
(2.45 %)
15,059,591
(37.67 %)
1
(0.00 %)
1,026,612
(2.27 %)
36,133
(0.92 %)
26,329
(0.73 %)
13 white-tufted-ear marmoset (paternal 2020)
GCA_011100535.1
n/a n/a 20,939
(1.94 %)
20,416
(1.31 %)
n/a 41.04
(99.58 %)
0
(0 %)
788
(0.42 %)
336
(100.00 %)
4,869,007
(49.39 %)
746,577
(2.68 %)
14,347,286
(37.59 %)
0
(0 %)
1,026,338
(2.34 %)
35,222
(0.94 %)
25,795
(0.75 %)
14 white-tufted-ear marmoset (paternal X 2020)
GCA_011100555.1
n/a n/a 21,709
(1.91 %)
21,245
(1.29 %)
n/a 40.95
(99.53 %)
0
(0 %)
959
(0.47 %)
353
(100.00 %)
5,123,971
(49.94 %)
785,181
(2.64 %)
15,163,086
(37.93 %)
1
(0.00 %)
1,081,175
(2.37 %)
36,768
(0.93 %)
26,641
(0.74 %)
15 zebra finch (maternal)
GCA_008822115.3
n/a n/a 11,950
(2.00 %)
22,828
(2.51 %)
n/a 42.06
(98.45 %)
0
(0 %)
583
(1.55 %)
206
(100.00 %)
494,110
(9.54 %)
347,933
(2.80 %)
5,875,448
(20.29 %)
0
(0 %)
249,341
(1.71 %)
27,387
(2.57 %)
20,823
(1.23 %)
16 zebra finch (paternal)
GCA_008822125.1
n/a n/a 12,384
(1.97 %)
23,021
(2.44 %)
n/a 41.74
(98.02 %)
0
(0 %)
828
(1.98 %)
202
(100.00 %)
511,324
(8.38 %)
351,624
(2.53 %)
6,328,918
(19.99 %)
1
(0.00 %)
233,403
(1.42 %)
25,871
(2.29 %)
20,873
(1.18 %)
17 zebra finch (paternal W)
GCF_008822105.2
50,407
(7.20 %)
n/a 12,470
(1.95 %)
23,352
(2.42 %)
n/a 41.81
(97.98 %)
0
(0 %)
857
(2.02 %)
205
(100.00 %)
529,829
(9.55 %)
357,586
(2.56 %)
6,359,599
(20.12 %)
3
(0.00 %)
246,785
(1.53 %)
27,755
(2.36 %)
21,477
(1.19 %)
TOTALS:total assembly count 17

Alternate sets of VGP assembliesNCBI Refseq
Index pages:  primary assembly alternate/haplotype trio mat/pat legacy/superseded other NCBI Refseq assemblies
Assembly statistics:  primary assembly alternate/haplotype trio mat/pat legacy/superseded other NCBI Refseq assemblies
Track statistics:  primary assembly alternate/haplotype trio mat/pat legacy/superseded other NCBI Refseq assemblies