Table 1 List of taxa analyzed with novel genes and total number of
contigs after assembly Taxon Total
contig number Metazoa Porifera Kirkpatrickia variolosa (Kirkpatrick, 1907) 100,231 Latrunculia apicalis Ridley & Dendy, 1886 76,210 Ctenophora Coeloplana astericola Mortensen, 1927 222,614 Mnemiopsis leidyi A.
It should be noted that the quality of the de novo transcriptome assembly is reliant on the user-defined k-mer value characterized as the length parameter defining the sequence overlap between two reads forming a contiguous sequence (referred as a
contig) [44,45].
Insertions were investigated using all
contigs >500 bp generated from de novo assembly of the reads unmapped after reference based assembly.
Trans-ABySS
Contigs ([greater than or equal to] 100 bp) 557,740 Large
contigs ([greater than or equal to] 1,000 bp) 49,162 Maximum length (bp) 13,707 Average length (bp) 333.4 N50 (bp) 1,198
Contigs after length filtering ([greater than or equal 156,686 to] 200 bp) Percentage
contigs kept after length filtering 28.09% Average
contig length after length filtering (bp) 984.2
Contigs (After CD-HIT-EST + CAP3) 105,153 Average length (bp) (After CD-HIT-EST + CAP3) 591.2 Reads mapped to final reference (%) 70.62 TABLE 2.
For this clade a single
contig was then generated and deposited on NCBI GenBank under accession number JN797618.
(23) The final sequence for each strain was obtained using the
Contig Assembly Program (CAP) in BioEdit v.5.0.9 (22) and submitted to BLASTn for homology confirmation.
En la figura 5 se muestran los
contig que fueron analizados, asi como la descripcion de la banda a partir de la cual se realizo la clonacion y secuenciacion.
Fine genetic mapping and BAC
contig development for the citrus tristeza virus resistance gene locus in Poncirus trifoliata (Raf.).
Exonic splicing enhancer (ESE) finder (Cold Spring Harbor Laboratory, New York, US) was used to test whether these polymorphisms had the ability to affect or act as an ESE and found polymorphisms around several ESE motifs in the region (range
contig position from 21561001 to 21561901).
SNP linked to Gene ABCB6(geneID:10058) Via
Contig Annotation.
Construction of a 350-kb sequence-ready 11q13 cosmid
contig encompassing the markers D11S4933 and D11S546: mapping of 11 genes and 3 tumor-associated translocation breakpoints.