Transcriptome sequencing and annotation of the polychaete Hermodice carunculata (Annelida, Amphinomidae)

BMC Genomics

Table 1 Summary Statistics for individual and merged assemblies

Assembly	Number of transcripts > 200 bp	N50 bp	Mean length bp	Max length bp	Total number of bp
K-mer 21	143,191	584	505.54	7,342	72,390,913
K-mer 25	160,583	771	605.87	13,382	97,292,569
K-mer 29	188,890	631	523.05	8,878	98,798,757
K-mer 35	225,756	689	551.61	11,724	124,529,844
K-mer 41	179,143	891	633.86	18,825	113,522,250
K-mer 45	171,154	983	667.66	24,711	114,273,429
K-mer 51	156,387	1,096	713.03	17,800	111,509,378
K-mer 55	144,565	1,160	740.32	14,922	107,023,822
Final	525,989	1,095	722.3	24,711	379,922,870
Generated ORFs from Assembly	Number of ORFs >200 AA	N50 AA	Mean length AA	Max length AA	Total number of AA
ORFs > 200AA	58,454	490	443.92	8,167	25,948,636

For each k-mer, data from AbySS is shown. The final assmbly is the result of merging the AbySS k-mer assemblies using BLAT to remove the redundancies. Predicted ORF’s longer than 200AA’s from this final contig set were used for annotation. K-mer = required length of overlap match between two reads in AbySS; N50 = length weigthed median contig length; bp = base pair; ORF = Open Reading Frame.

ISSN: 1471-2164