|
H. glycines TN10 pseudomolecule |
H. glycines TN10 Draft |
H. glycines X12 pseudomolecule |
Globodera rostochiensis |
Globodera pallida |
Globodera ellingtonae |
Meloidogyne hapla |
Meloidogyne incognita |
Available on SCNBase |
Yes |
Yes |
Yes |
No, try Wormbase |
No, try Wormbase |
No, try Wormbase. Annotation is here. |
No, try Wormbase |
No, try Wormbase |
Number of scaffolds |
9 |
738 |
267 |
4,281 |
6,873 |
2,246 |
3,452 |
12,091 |
Number of contigs |
2,109 |
738 |
888 |
17,236 |
18,270 |
13,843 |
3,452 |
13,148 |
Percent scaffolded contigs |
100.0% |
N/A |
92.6% |
94.2% |
90.1% |
94.8% |
N/A |
25.0% |
Genome size (base pairs) |
157,982,452 |
123,847,574 |
141,354,287 |
95,876,286 |
123,625,196 |
105,964,814 |
53,017,507 |
183,531,997 |
N50 scaffold length (base pairs) |
17,908,190 |
304,127 |
16,265,615 |
88,688 |
120,481 |
327,189 |
37,608 |
62,516 |
L50 scaffolds |
4 |
109 |
4 |
278 |
296 |
85 |
372 |
1,209 |
N's (%) |
1.06% |
0.00% |
0.73% |
4.61% |
16.17% |
0.85% |
0.00% |
1.81% |
Gaps |
4,328 |
0 |
1,244 |
47,076 |
35,940 |
26,075 |
N/A |
10,490 |
BUSCO Proteins (Eukaryota_odb10) |
C:78.0%[S:69.0%,D:9.0%],F:7.8%,M:14.2%,n:255 |
C:89.0%[S:68.2%,D:20.8%],F:3.1%,M:7.9%,n:255 |
C:64.7%[S:58.8%,D:5.9%],F:13.7%,M:21.6%,n:255 |
C:63.2%[S:62.4%,D:0.8%],F:18.4%,M:18.4%,n:255 |
C:48.2%[S:43.9%,D:4.3%],F:22.4%,M:29.4%,n:255 |
C:59.6%[S:59.6%,D:0.0%],F:18.4%,M:22.0%,n:255 |
C:65.1%[S:64.7%,D:0.4%],F:16.9%,M:18.0%,n:255 |
C:70.2%[S:18.0%,D:52.2%],F:12.2%,M:17.6%,n:255 |
BUSCO Genome (Nematoda_odb10) |
C:55.6%[S:52.5%,D:3.1%],F:2.3%,M:42.1%,n:3131 |
C:55.1%[S:47.4%,D:7.7%],F:2.0%,M:42.9%,n:3131 |
C:52.2%[S:49.0%,D:3.2%],F:1.8%,M:46.0%,n:3131 |
C:60.0%[S:58.9%,D:1.1%],F:1.9%,M:38.1%,n:3131 |
C:46.7%[S:43.5%,D:3.2%],F:2.5%,M:50.8%,n:3131 |
C:54.4%[S:52.8%,D:1.6%],F:2.4%,M:43.2%,n:3131 |
C:45.4%[S:44.5%,D:0.9%],F:4.7%,M:49.9%,n:3131 |
C:63.6%[S:24.0%,D:39.6%],F:1.0%,M:35.4%,n:3131 |
BUSCO Proteins (Nematoda_odb10) |
C:60.2%[S:51.5%,D:8.7%],F:1.5%,M:38.3%,n:3131 |
C:66.5%[S:47.7%,D:18.8%],F:1.6%,M:31.9%,n:3131 |
C:53.9%[S:49.4%,D:4.5%],F:2.2%,M:43.9%,n:3131 |
C:66.7%[S:64.3%,D:2.4%],F:2.1%,M:31.2%,n:3131 |
C:45.6%[S:41.9%,D:3.7%],F:2.8%,M:51.6%,n:3131 |
C:65.4%[S:56.5%,D:8.9%],F:2.0%,M:32.6%,n:3131 |
C:59.6%[S:58.5%,D:1.1%],F:2.2%,M:38.2%,n:3131 |
C:68.5%[S:13.9%,D:54.6%],F:1.7%,M:29.8%,n:3131 |
BUSCO Max Missing (Nematoda_odb10) |
299/2465 (12.1%) |
274/2465 (11.1%) |
476/2465 (19.3%) |
215/2465 (8.7%) |
711/2465 (28.8%) |
300/2465 (11.4%) |
384/2465 (15.6%) |
223/2465 (9%) |
Gene Statistics |
Total : 102,643,360
Count: 22,465
Mean: 4,569
Max: 334,901 |
Total: 71,832,760
Count: 29,769
Mean: 2,413
Max: 65,717 |
Total: 41,620,250
Count: 11,882
Mean: 3,502
Max: 97,943 |
Total: 39,556,786
Count: 14,308
Mean: 2,764
Max: 43,003 |
Total: 39,553,007
Count: 16,403
Mean: 2,411
Max: 203,234 |
Total: 44,105,901
Count: 19,428
Mean: 2,270
Max: 34,634 |
Total: 26,366,893
Count: 14,419
Mean: 1,828
Max: 21,476 |
Total: 87,998,653
Count: 45,351
Mean: 1,940
Max: 55,968 |
Transcript Statistics |
Total: 103,726,162
Count: 23,933
Mean: 4,334
Max: 334,904 |
Total: 82,225,676
Count: 32,271
Mean: 2,547
Max: 65,717 |
Total: 41,620,250
Count: 11,882
Mean: 3,502
Max: 97,943 |
Total: 39,558,194
Count: 14,309
Mean: 2,764
Max: 43,003 |
Total: 39,553,007
Count: 16,403
Mean: 2,411
Max: 203,234 |
Total: 49,290,306
Count: 20,704
Mean: 2,380
Max: 34,634 |
Total: 26,366,893
Count: 14,419
Mean: 1,828
Max: 21,476 |
Total: 87,760,630
Count: 43,718
Mean: 2,007
Max: 55,968 |
Exon Statistics |
Total: 28,809,023
Count: 182,837
Mean: 157
Max: 5,764 |
Total: 38,506,160
Count: 234,671
Mean: 164
Max: 12,491 |
Total: 16,809,661
Count: 100,197
Mean: 167
Max: 6,154 |
Total: 18,085,706
Count: 125,167
Mean: 144
Max: 11,924 |
Total: 17,623,861
Count: 131,459
Mean: 134
Max: 12,238 |
Total: 24,938,405
Count: 162,096
Mean: 153
Max: 9,312 |
Total: 15,015,088
Count: 88,145
Mean: 170
Max: 8,465 |
Total: 48,111,770
Count: 275,269
Mean: 174
Max: 10,685 |
References |
Masonbrink, R.E., et al., 2021 |
Masonbrink, R.E., et al., 2019 |
Lian, Y., et al., 2019 |
Eves-van den Akker, S., et al 2016 |
Cotton, J.A., et al 2014 |
Phillips W.S., et al., 2017 |
Opperman, C.H., et al 2008 |
Abad, P., et al., 2008 |