Create 2024-07-26-Sebastes_fasciatus-fSebFas1.md

posts/2024/2024-07-26-Sebastes_fasciatus-fSebFas1.md

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+---
+media:
+  - bluesky-galaxyproject
+  - mastodon-eu-freiburg
+  - linkedin-galaxyproject
+
+mentions:
+  bluesky-galaxyproject:
+    - ebpgenome.bsky.social
+
+hashtags:
+  bluesky-galaxyproject:
+    - UseGalaxy
+  mastodon-eu-freiburg:
+    - VGP
+    - EBP
+    - UseGalaxy
+
+---
+We have finished the curation of Sebastes fasciatus (Acadian redfish), fSebFas1. The files have been uploaded to [GenomeArk](https://genomeark.s3.amazonaws.com/index.html?prefix=species/Sebastes_fasciatus/fSebFas1/assembly_curated/). Curation was done by Kirsty McCaffrey, with QCing by Jo Collins.
+
+![grafik](https://github.com/user-attachments/assets/95eef11f-f445-4b37-a548-d2fdefb7b110)
+
+
+Karyotyping indicated 24 chromosome pairs. No sex chromosomes where identified. 99.25% of sequence was assigned to chromosomes in this primary assembly.
+
+Note: For chromosome 7 between 0-788Kb and for chromosome 19 between 0-1.6Mb, the curation team was unsure of the ordering of the fragments in these regions.
+
+Statistics for primary assembly:  
++++Assembly summary+++:  
+Num scaffolds: 203  
+Total scaffold length: 833835073  
+Average scaffold length: 4107561.94  
+Scaffold N50: 36314571  
+Scaffold auN: 35186726.68  
+Scaffold L50: 11  
+Largest scaffold: 46713506  
+Smallest scaffold: 6737  
+Num contigs: 674  
+Total contig length: 833750873  
+Average contig length: 1237019.10  
+Contig N50: 7769413  
+Contig auN: 9481484.12  
+Contig L50: 32  
+Largest contig: 28624128  
+Smallest contig: 141  
+Num gaps in scaffolds: 471  
+Total gap length in scaffolds: 84200  
+Average gap length in scaffolds: 178.77  
+Gap N50 in scaffolds: 200  
+Gap auN in scaffolds: 188.12  
+Gap L50 in scaffolds: 211  
+Largest gap in scaffolds: 200  
+Smallest gap in scaffolds: 100  
+Base composition (A:C:G:T): 246189749:170749526:170284260:246527338  
+GC content %: 40.90  
+Num soft-masked bases: 0  
+Num segments: 674  
+Total segment length: 833750873  
+Average segment length: 1237019.10  
+Num gaps: 471  
+Num paths: 203