------ Summary for ./data/seq/HsaN on 09-Jul-26 ------
Summary file: ./data/seq/HsaN/xSummary.log
Verbose output
Sequence directory: ./data/seq/HsaN
GCF_000001405.40_GRCh38.p14_genomic.fna.gz File date 02-Aug-2024 15:15
Annotation directory: ./data/seq/HsaN
genomic.gff.gz File date 02-Aug-2024 15:17
### FASTA sequence file(s)
Example header lines
Chr: >NC_000001.11 Homo sapiens chromosome 1, GRCh38.p14 Primary Assembly
Scaf: >NT_187361.1 Homo sapiens chromosome 1 unlocalized genomic scaffold, GRCh38.p14 Primary Assembly HSCHR1_CTG1_UNLOCALIZED
Scaf: >NW_012132914.1 Homo sapiens chromosome 1 genomic patch of type FIX, GRCh38.p14 PATCHES HG1342_HG2282_PATCH
Mt: >NC_012920.1 Homo sapiens mitochondrion, complete genome
Count prefixes
355 NT_
325 NW_
25 NC_
Lengths of 27 sequence (includes all chromosomes)
Length SeqId
248,956,422 NC_000001.11
175,055 NT_187361.1
32,032 NT_187362.1
242,193,529 NC_000002.12
198,295,559 NC_000003.12
190,214,555 NC_000004.12
181,538,259 NC_000005.10
170,805,979 NC_000006.12
159,345,973 NC_000007.14
145,138,636 NC_000008.11
138,394,717 NC_000009.12
133,797,422 NC_000010.11
135,086,622 NC_000011.10
133,275,309 NC_000012.12
114,364,328 NC_000013.11
107,043,718 NC_000014.9
101,991,189 NC_000015.10
90,338,345 NC_000016.10
83,257,441 NC_000017.11
80,373,285 NC_000018.10
58,617,616 NC_000019.10
64,444,167 NC_000020.11
46,709,983 NC_000021.9
50,818,468 NC_000022.11
156,040,895 NC_000023.11
57,227,415 NC_000024.10
16,569 NC_012920.1
#Seqs<length && >=previous
0<10k 96<100k 461<1M 33<10M 1<50M 7<100M 14<200M 2<300M
Base count for 1st 2.14G bases
A 382,077,624 a 241,302,208
T 382,446,377 t 242,364,262
C 273,762,314 c 147,038,618
G 273,861,270 g 148,106,073
N 56,524,838 n 0
B 2 K 5 M 6 R 18 S 2 W 10 Y 22
Summary
24 Chromosomes 3,088,269,832
680 Scaffolds 210,144,235
1 Mt/Pt 16,569
705 Total 3,298,430,636
### GFF Annotation file(s)
Example lines
NC_000001.11 BestRefSeq gene 65419 71585 . + . ID=gene-OR4F5;Dbxref=GeneID:79501,HGNC:HGNC:14825;Name=OR4F5;description=olfactory receptor family 4 subfamily F member 5;gbkey=Gene;gene=OR4F5;gene_biotype=protein_coding
NC_000001.11 BestRefSeq mRNA 65419 71585 . + . ID=rna-NM_001005484.2;Parent=gene-OR4F5;Dbxref=Ensembl:ENST00000641515.2,GeneID:79501,GenBank:NM_001005484.2,HGNC:HGNC:14825;Name=NM_001005484.2;gbkey=mRNA;gene=OR4F5;product=olfactory receptor family 4 subfamily F member 5;tag=MANE Select;transcript_id=NM_001005484.2
NC_000001.11 BestRefSeq exon 65419 65433 . + . ID=exon-NM_001005484.2-1;Parent=rna-NM_001005484.2;Dbxref=Ensembl:ENST00000641515.2,GeneID:79501,GenBank:NM_001005484.2,HGNC:HGNC:14825;gbkey=mRNA;gene=OR4F5;product=olfactory receptor family 4 subfamily F member 5;tag=MANE Select;transcript_id=NM_001005484.2
NC_000001.11 BestRefSeq CDS 65565 65573 . + 0 ID=cds-NP_001005484.2;Parent=rna-NM_001005484.2;Dbxref=CCDS:CCDS30547.2,Ensembl:ENSP00000493376.2,GeneID:79501,GenBank:NP_001005484.2,HGNC:HGNC:14825;Name=NP_001005484.2;gbkey=CDS;gene=OR4F5;product=olfactory receptor 4F5;protein_id=NP_001005484.2;tag=MANE Select
Types
6 CAAT_signal 96 CAGE_cluster 1,838,180 CDS
44 C_gene_segment 177 DNaseI_hypersensitive... 61 D_gene_segment
1 D_loop 15 GC_rich_promoter_regi... 128 J_gene_segment
1 RNase_MRP_RNA 2 RNase_P_RNA 30 TATA_box
664 V_gene_segment 4 Y_RNA 39 antisense_RNA
137,091 biological_region 26,404 cDNA_match 24 centromere
14 chromosome_breakpoint... 138 conserved_region 20 direct_repeat
5 dispersed_repeat 115,163 enhancer 59 enhancer_blocking_ele...
12 epigenetically_modifi... 2,307,779 exon 48,104 gene
2 imprinting_control_re... 12 insulator 32,844 lnc_RNA
14 locus_control_region 144,481 mRNA 161,162 match
18 matrix_attachment_sit... 368 meiotic_recombination... 3,218 miRNA
5 microsatellite 13 minisatellite 54 mitotic_recombination...
204 mobile_genetic_elemen... 54 ncRNA 514 non_allelic_homologou...
4 nucleotide_cleavage_s... 623 nucleotide_motif 87 origin_of_replication...
2,139 primary_transcript 438 promoter 1,418 protein_binding_site
19,252 pseudogene 80 rRNA 632 recombination_feature...
709 region 2 regulatory_region 62 repeat_instability_re...
10 repeat_region 11 replication_regulator... 3 replication_start_sit...
20 response_element 4 scRNA 30 sequence_alteration
10 sequence_alteration_a... 2 sequence_comparison 1,964 sequence_feature
14 sequence_secondary_st... 35,932 silencer 172 snRNA
1,300 snoRNA 691 tRNA 64 tandem_repeat
1 telomerase_RNA 14,974 transcript 2,259 transcriptional_cis_r...
4 vault_RNA
Gene attribute biotype=values
33 C_region 61 D_segment 117 J_segment
1 RNase_MRP_RNA 2 RNase_P_RNA 365 V_segment
4 Y_RNA 20 antisense_RNA 19,645 lncRNA
2,139 miRNA 68 misc_RNA 54 ncRNA
29 other 23,314 protein_coding 80 rRNA
4 scRNA 172 snRNA 1,300 snoRNA
691 tRNA 1 telomerase_RNA 4 vault_RNA
Gene attribute keywords
23,314 Dbxref 23,314 ID 23,314 Name
23,301 description 195 end_range 18 exception
23,314 gbkey 23,314 gene 23,314 gene_biotype
19,894 gene_synonym 335 partial 141 start_range
23,301 mRNA's with attribute keyword 'product'
Summary
23,314 Gene from 48,104 (protein_coding)
23,314 mRNA from 144,481 (1st mRNA)
233,893 Exon from 2,307,779
215,377 CDS from 1,838,180
Input type: NCBI GFF header; NCBI NC_ chromosome prefix
NCBI 'gene_biotype' keyword; NCBI mRNA 'product' keyword; gene 'description' keyword
------ Finish summary for ./data/seq/HsaN/ ------