Table 3.

Assembly metrics and RefSeq automated analysis of recent rat genome assemblies.

Assembly Name	mRatBN7.2	SHR
NCBI Accession #	GCA_015227675.2	GCA_021556685.1
Total Transcripts evaluated	20479	20479
Total Genes evaluated	18260	18260
Unaligned Transcripts	18	27
Unaligned Genes	18	27
Split Transcripts	0	2
Split Genes	0	2
Low Coverage CDS	16	35
Low Coverage CDS Genes	16	31
Frameshifted CDS	205	100
Frameshifted CDS Genes	180	95
Transcripts with start codon changes	4	7
Genes with start codon changes	1	7
Transcripts with stop codon changes	15	47
Genes with stop codon changes	15	46
TOTAL Genes	230	208

Notes: Unaligned transcripts and genes are transcripts and protein coding sequences for which no alignment was found. Split alignment transcripts and genes are those for which the best alignment is split across more than one locus. Low coding sequences (CDS) coverage transcripts and genes have alignments covering less than 95% of the CDS. Dropped transcripts and genes are excluded from the final annotation because they overlap or conflict with other gene(s) with higher precedence. Frameshifts are transcripts with CDS that project imperfectly on the assembly. Start and stop changes are transcripts and genes with a mismatch versus the genome in the start codon or the stop codon causing it to become coding, or in an internal codon causing it to become a stop codon.