# Final Results

## BUSCO
# BUSCO version is: 5.4.4 
# The lineage dataset is: eukaryota_odb10 (Creation date: 2020-09-10, number of genomes: 70, number of BUSCOs: 255)
# Summarized benchmarking in BUSCO notation for file transcripts.fasta
# BUSCO was run in mode: euk_tran

	***** Results: *****

	C:89.8%[S:24.7%,D:65.1%],F:6.3%,M:3.9%,n:255	   
	229	Complete BUSCOs (C)			   
	63	Complete and single-copy BUSCOs (S)	   
	166	Complete and duplicated BUSCOs (D)	   
	16	Fragmented BUSCOs (F)			   
	10	Missing BUSCOs (M)			   
	255	Total BUSCO groups searched		   

Dependencies and versions:
	hmmsearch: 3.1
	metaeuk: 6.a5d39d9
	busco: 5.4.4

Report:
    In the analysis of the transcriptome assembly using BUSCO, we identified 229 complete BUSCOs, representing 89.8% of the total 255 BUSCO groups searched. Of these complete BUSCOs, 63 were classified as complete and single-copy (S), while 166 were identified as complete and duplicated (D). The analysis also revealed 16 fragmented BUSCOs (F) and 10 missing BUSCOs (M). These results indicate good completeness in terms of expected gene content, but the presence of fragmented and missing BUSCOs suggests that further investigation is needed to improve the quality of the transcriptome assembly.



## Contig metrics
n seqs                        91092
smallest                        223
largest                       28459
n bases                   126520031
mean len                    1388.93
n under 200                       0
n over 1k                     41012
n over 10k                      180
n with orf                    43335
mean orf percent              58.08
n90                             563
n70                            1473
n50                            2333
n30                            3533
n10                            5886
gc                             0.54
bases n                      250420



Report:
    The contig metrics reveal that the transcriptome assembly consists of 91,092 contigs, with a total length of 126,520,031 bases and a mean length of 1388.93 bases. The assembly contains 41,012 contigs with lengths over 1,000 bases, including 180 contigs longer than 10,000 bases. About half of the bases in the assembly are GC (0.54). The assembly also contains 43,335 contigs with open reading frames (ORFs), with a mean ORF percent of 58.08%. The N50 of the assembly is 2333, indicating that half of the total assembly length is contained in contigs of at least 2333 bases. The N90 of 563 suggests that 90% of the assembly length is contained in contigs of at least 563 bases. Finally, there were no contigs under 200 bases in length. The presence of a significant number of contigs with ORFs and long contigs suggests that the transcriptome assembly is of good quality. However, the relatively high number of contigs (n=43,335) with ORFs raises the possibility that some of these contigs may be misassembled or represent partial transcripts. Further analysis, such as alignment to a reference genome or functional annotation, would help to clarify the quality and completeness of the assembly.