Directory MAGIv3.1: Contains FASTA files for version 3.1. Fu Y, Emrich SJ, Guo L, Wen T-J, Aluru S, Ashlock DA, Schnable PS (2005) Quality assesment of maize assembled genomic islands (MAGIs) and experimental verification of predicted genes. Proceedings National Academy Science, 102(34): 12282-12287. Emrich SJ, Aluru S, Fu Y, Narayanan M, Guo L, Ashlock DA, Schnable PS (2004) A strategy for assembling the maize (Zea mays L.) Genome. Bioinformatics, 20(2): 140-147. [Full Text PDF] Directory MAGIv4.0: Contains FASTA files for version 4.0. Kalyanaraman A, Emrich SJ, Schnable PS, Aluru S (2006) Assembling genomes on large-scale parallel computers. Proceedings of the IEEE International Parallel and Distributed Processing Symposium, April 25-29, 2006. Directories MEC_P95-XXX and MEC_P98-XXX: Contain FASTA files for Maize EST contigs that assembled using EST data harvested from GenBank in May 2005 and March 2006. P95 and P98 indicate the identity percentages that were used in the assembly. 418,638 Zea mays ESTs were downloaded from the dbEST division of GenBank. Contaminated sequences were removed. In addition, Shoot Apical Meristem (SAM) ESTs from the University of Georgia and Iowa State University were also processed. These ESTs were then clustered using PaCE with initial 30 bp exact match as criterion. Overlaps with >= 87% identity over 80 bp were used to merge clusters. Two distinct EST assemblies, named MEC_P98-May05 and MEC_P95-May05 were subsequently generated using the same PaCE clustering result. MEC_P98-May05 and MEC_P95-May05 were built using CAP3 with the following parameters: >=98% (_P98) and >=95% (_P95) identities, <=5% overhang length, >=60 bp clipping range, and an overlap length >= 50 bp. GeneSeqer EST alignment display cutoff: at least one exon with similarity >= 95% and overall cDNA coverage >= 80%.