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Table 1 Sequences tested in comparative analysis.

From: Scipio: Using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species

Species typ. target size (kbp) # of target sequences # of query sequences
Bombyx mori p50T 2.8 213 289 8
Drosophila simulans 9.4 31 198 37
Bombyx mori str. Dazao 14 66 482 32
Nasonia vitripennis (contigs) 27 26 605 35
Nasonia vitripennis (scaffolds) 1 827 6 181 35
Drosophila sechellia 70 21 425 38
Aedes aegypti 113 36 206 40
Daphnia pulex 825 9 080 42
Anopheles gambiae 6 969 69 724 37
Drosophila melanogaster 21 575 13 38
Aspergillus niger 2 409 143 15
Homo sapiens 153 287 24 40
Macaca mulatta 150 724 22 40
  1. A list of 9 insect, one fungi, and two primate genomes, searched for kinesin and myosin genes to compare the performance of Scipio with that of BLAT and Exonerate. Genomic target sequences were taken from different stages of assembly, as can be seen from the different typical target sizes (D. melanogaster, H. sapiens and M. mulatta were given as sets of complete chromosomes; of the genome of N. vitripennis, two versions were compared; the genome of A. gambiae was given partly in chromosomes, partly in small contigs). The protein query sequences were taken from the same species as the genome.