------ Summary for ./data/seq/HsaE on 09-Jul-26 ------
Summary file: ./data/seq/HsaE/xSummary.log
Verbose output
Sequence directory: ./data/seq/HsaE
Homo_sapiens.GRCh38.dna_sm.toplevel.fa.gz File date 02-Aug-2024 12:21
Annotation directory: ./data/seq/HsaE
Homo_sapiens.GRCh38.112.gff3.gz File date 02-Aug-2024 12:23
### FASTA sequence file(s)
Example header lines
Chr: >1 dna_sm:chromosome chromosome:GRCh38:1:1:248956422:1 REF
Mt: >MT dna_sm:chromosome chromosome:GRCh38:MT:1:16569:1 REF
Scaf: >HG76_PATCH dna_sm:scaffold scaffold:GRCh38:HG76_PATCH:1:6367528:1
Scaf: >HSCHR15_4_CTG8 dna_sm:scaffold scaffold:GRCh38:HSCHR15_4_CTG8:1:5161414:1
Scaf: >HSCHRX_1_CTG14 dna_sm:scaffold scaffold:GRCh38:HSCHRX_1_CTG14:1:619716:1
Count prefixes
342 HSCHR
163 HG
153 KI
24 Number, X, Y, Roman
16 GL
7 HSCHRX
1 MT
Lengths of 27 sequence (includes all chromosomes)
Length SeqId
248,956,422 1
242,193,529 2
198,295,559 3
190,214,555 4
181,538,259 5
170,805,979 6
159,345,973 7
145,138,636 8
138,394,717 9
133,797,422 10
135,086,622 11
133,275,309 12
114,364,328 13
107,043,718 14
101,991,189 15
90,338,345 16
83,257,441 17
80,373,285 18
58,617,616 19
64,444,167 20
46,709,983 21
50,818,468 22
156,040,895 X
57,227,415 Y
16,569 MT
6,367,528 HG76_PATCH
5,500,449 HG2365_PATCH
#Seqs<length && >=previous
0<10k 97<100k 463<1M 31<10M 1<50M 7<100M 14<200M 2<300M
Base count for 1st 2.14G bases
A 297,043,935 a 326,406,502
T 297,286,975 t 327,570,043
C 196,594,125 c 224,154,138
G 196,734,887 g 225,168,141
N 53,318,034 n 3,206,869
Summary
24 Chromosomes 3,088,269,832
681 Scaffolds 203,298,948
1 Mt/Pt 16,569
706 Total 3,291,585,349
### GFF Annotation file(s)
Example lines
1 ensembl_havana gene 65419 71585 . + . ID=gene:ENSG00000186092;Name=OR4F5;biotype=protein_coding;description=olfactory receptor family 4 subfamily F member 5 [Source:HGNC Symbol%3BAcc:HGNC:14825];gene_id=ENSG00000186092;logic_name=ensembl_havana_gene_homo_sapiens;version=7
1 havana mRNA 65419 71585 . + . ID=transcript:ENST00000641515;Parent=gene:ENSG00000186092;Name=OR4F5-201;biotype=protein_coding;ccdsid=CCDS30547.2;tag=basic,Ensembl_canonical,MANE_Select,GENCODE Primary;transcript_id=ENST00000641515;version=2
1 havana exon 65419 65433 . + . Parent=transcript:ENST00000641515;Name=ENSE00003812156;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00003812156;rank=1;version=1
1 havana CDS 65565 65573 . + 0 ID=CDS:ENSP00000493376;Parent=transcript:ENST00000641515;protein_id=ENSP00000493376
Types
900,301 CDS 29 C_gene_segment 42 D_gene_segment
97 J_gene_segment 252 V_gene_segment 182,818 biological_region
25 chromosome 1,668,828 exon 175,449 five_prime_UTR
21,571 gene 92,171 lnc_RNA 111,563 mRNA
1,879 miRNA 26,350 ncRNA_gene 10 processed_transcript
15,219 pseudogene 15,222 pseudogenic_transcrip... 55 rRNA
50 scRNA 169 scaffold 1,915 snRNA
942 snoRNA 22 tRNA 211,674 three_prime_UTR
28,741 transcript 1,139 unconfirmed_transcrip...
Gene attribute biotype=values
14 IG_C_gene 37 IG_D_gene 18 IG_J_gene
145 IG_V_gene 1,052 TEC 6 TR_C_gene
5 TR_D_gene 79 TR_J_gene 107 TR_V_gene
19 artifact 20,089 protein_coding
Gene attribute keywords
20,089 ID 19,463 Name 20,089 biotype
20,067 description 20,089 gene_id 20,089 logic_name
20,089 version
Summary
20,089 Gene from 21,571 (protein_coding)
20,089 mRNA from 111,563 (1st mRNA)
189,587 Exon from 1,668,828
167,592 CDS from 900,301
Input type: Ensembl chr 'Number, X, Y, Roman'
Ensembl 'biotype' keyword; gene 'description' keyword
------ Finish summary for ./data/seq/HsaE/ ------