------ Summary for ./data/seq/cabbE ------
Log file to ./data/seq/cabbE/xSummary.log
Verbose output
Sequence directory: ./data/seq/cabbE 23-Aug-2024 16:25
Brassica_oleracea.BOL.dna_sm.toplevel.fa.gz
Annotation directory: ./data/seq/cabbE
Brassica_oleracea.BOL.59.gff3.gz
FASTA sequence file(s)
Example header lines:
Chr: >C1 dna_sm:chromosome chromosome:BOL:C1:1:43764888:1 REF
Scaf: >Scaffold00285 dna_sm:scaffold scaffold:BOL:Scaffold00285:1:550871:1 REF
Count Totals:
9 Chromosomes
32,919 Scaffolds
32,928 Total sequences
Count Prefixes:
32,919 Scaffold
9 C
Counts of Length Ranges:
32,327<10k 552<100k 40<1M <10M 5<50M 4<100M
488,622,507 Total length
Lengths of first 5 sequences:
C1 43,764,888
C2 52,886,895
C3 64,984,695
C4 53,719,093
C5 46,902,585
Base counts of 1st 1000 sequences:
A 71,955,453 a 65,496,798
T 71,990,285 t 65,486,531
C 42,548,399 c 34,974,680
G 42,573,959 g 34,958,349
N 325 n 42,629,549
GFF Annotation file(s)
Example lines:
C1 brad gene 1449 1625 . - . ID=gene:Bo1g001000;biotype=protein_coding;gene_id=Bo1g001000;logic_name...
C1 brad mRNA 1449 1625 . - . ID=transcript:Bo1g001000.1;Parent=gene:Bo1g001000;biotype=protein_coding...
C1 brad exon 1449 1625 . - . Parent=transcript:Bo1g001000.1;Name=Bo1g001000.1_exon_1;constitutive=1;e...
Summary:
59,220 Genes from 59,225 (use protein_coding only)
59,220 mRNAs from 59,225 (59,220 has protein_id)
268,591 Exons from 269,978
Types: 15
268,591 CDS 3 RNase_MRP_RNA 29 SRP_RNA
9 chromosome 269,978 exon 59,225 gene
22 lnc_RNA 59,225 mRNA 1,361 ncRNA_gene
121 pre_miRNA 220 rRNA 32,919 scaffold
174 snRNA 282 snoRNA 510 tRNA
Gene Attributes biotype: 2
5 nontranslating_CDS 59,220 protein_coding
Gene Attribute: 5
59,220 ID 59,220 biotype
15,318 description 59,220 gene_id
59,220 logic_name
Input type: Ensembl 'biotype' keyword; gene 'description' keyword
------ Finish summary for ./data/seq/cabbE/ ------