[ensembl-dev] HG375_PATCH features out of bounds

[Kamil Slowikowski]

There exist features outside the coordinates listed for HG375_PATCH. I'm
wondering if this is expected or if this is an error.


ftp://ftp.ensembl
.org/pub/release-72/fasta/homo_sapiens/dna/Homo_sapiens.GRCh37.72.dna.chromosome.HG375_PATCH.fa.gz

zcat Homo_sapiens.GRCh37.72.dna.chromosome.HG375_PATCH.fa.gz | head -n1
>HG375_PATCH dna:chromosome
chromosome:GRCh37:HG375_PATCH:104423968:104489001:1 PATCH_FIX

Notice that the last position is 104489001.


ftp://ftp.ensembl
.org/pub/release-72/gtf/homo_sapiens/Homo_sapiens.GRCh37.72.gtf.gz

zcat Homo_sapiens.GRCh37.72.gtf.gz | grep HG375_PATCH | cut -f1-5 | head
HG375_PATCH protein_coding exon 103810996 103811732
HG375_PATCH protein_coding exon 103903576 103903676
HG375_PATCH protein_coding CDS 103903595 103903676
HG375_PATCH protein_coding start_codon 103903595 103903597
HG375_PATCH protein_coding exon 104440157 104440430
HG375_PATCH protein_coding CDS 104440157 104440430
HG375_PATCH protein_coding exon 104478500 104478686
HG375_PATCH protein_coding CDS 104478500 104478686
HG375_PATCH protein_coding exon 104512069 104512222
HG375_PATCH protein_coding CDS 104512069 104512222

Notice the positions such as 104512069 are greater than 104489001.
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