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/etc/cct/global_settings.conf
/etc/cct/project_settings.conf
/etc/cct/project_settings_cds_vs_cds.conf
/etc/cct/project_settings_dna_vs_dna.conf
/etc/cct/project_settings_multi.conf
/usr/bin/build_blast_atlas
/usr/bin/build_blast_atlas_all_vs_all
/usr/bin/cgview_comparison_tool
/usr/bin/convert_vcf_to_features
/usr/bin/create_zoomed_maps
/usr/bin/fetch_all_refseq_bacterial_genomes
/usr/bin/fetch_all_refseq_chloroplast_genomes
/usr/bin/fetch_all_refseq_mitochondrial_genomes
/usr/bin/fetch_genome_by_accession
/usr/bin/fetch_refseq_bacterial_genomes_by_name
/usr/bin/ncbi_search
/usr/bin/redraw_maps
/usr/bin/remove_long_seqs
/usr/bin/remove_short_seqs
/usr/share/cct/conf
/usr/share/cct/lib/assign_cogs/README.txt
/usr/share/cct/lib/assign_cogs/assign_cogs.pl
/usr/share/cct/lib/assign_cogs/sample_output/sample_1.gff
/usr/share/cct/lib/assign_cogs/sample_output/sample_1b.gff
/usr/share/cct/lib/assign_cogs/sample_output/sample_2.gff
/usr/share/cct/lib/assign_cogs/sample_output/sample_2b.gff
/usr/share/cct/lib/assign_cogs/test.sh
/usr/share/cct/lib/assign_cogs/test_input/sample_1.gbk
/usr/share/cct/lib/assign_cogs/test_input/sample_2.fna
/usr/share/cct/lib/cgview_xml_builder/README.txt
/usr/share/cct/lib/cgview_xml_builder/cgview_xml_builder.pl
/usr/share/cct/lib/cgview_xml_builder/test.sh
/usr/share/cct/lib/cgview_xml_builder/test_input/R_denitrificans.cogs
/usr/share/cct/lib/cgview_xml_builder/test_input/R_denitrificans.gbk
/usr/share/cct/lib/cgview_xml_builder/test_input/labels_to_show.txt
/usr/share/cct/lib/convert_vcf_to_features/README.txt
/usr/share/cct/lib/convert_vcf_to_features/convert_vcf_to_features.pl
/usr/share/cct/lib/convert_vcf_to_features/test.sh
/usr/share/cct/lib/convert_vcf_to_features/test_data/input.vcf
/usr/share/cct/lib/get_cds/README.txt
/usr/share/cct/lib/get_cds/get_cds.pl
/usr/share/cct/lib/get_cds/sample_output/output.fasta
/usr/share/cct/lib/get_cds/test.sh
/usr/share/cct/lib/get_cds/test_input/test_input.gbk
/usr/share/cct/lib/get_orfs/README.txt
/usr/share/cct/lib/get_orfs/get_orfs.pl
/usr/share/cct/lib/get_orfs/sample_output/output.fasta
/usr/share/cct/lib/get_orfs/test.sh
/usr/share/cct/lib/get_orfs/test_input/test_input.fasta
/usr/share/cct/lib/local_blast_client/README.txt
/usr/share/cct/lib/local_blast_client/local_blast_client.pl
/usr/share/cct/lib/local_blast_client/sample_output/results_blastn.txt
/usr/share/cct/lib/local_blast_client/sample_output/results_blastp.txt
/usr/share/cct/lib/local_blast_client/sample_output/results_blastx.txt
/usr/share/cct/lib/local_blast_client/sample_output/results_tblastn.txt
/usr/share/cct/lib/local_blast_client/sample_output/results_tblastx.txt
/usr/share/cct/lib/local_blast_client/test.sh
/usr/share/cct/lib/local_blast_client/test_input/test_dna_database.fasta
/usr/share/cct/lib/local_blast_client/test_input/test_input_dna.fasta
/usr/share/cct/lib/local_blast_client/test_input/test_input_protein.fasta
/usr/share/cct/lib/local_blast_client/test_input/test_protein_database.fasta
/usr/share/cct/lib/ncbi_search/README.txt
/usr/share/cct/lib/ncbi_search/ncbi_search.pl
/usr/share/cct/lib/ncbi_search/sample_output/results1.txt
/usr/share/cct/lib/ncbi_search/sample_output/results2.txt
/usr/share/cct/lib/ncbi_search/sample_output/results3.txt
/usr/share/cct/lib/ncbi_search/test.sh
/usr/share/cct/lib/ncbi_search/test.txt
/usr/share/cct/lib/sequence_to_multi_fasta/README.txt
/usr/share/cct/lib/sequence_to_multi_fasta/sample_output/output1.fasta
/usr/share/cct/lib/sequence_to_multi_fasta/sample_output/output2.fasta
/usr/share/cct/lib/sequence_to_multi_fasta/sample_output/output3.fasta
/usr/share/cct/lib/sequence_to_multi_fasta/sequence_to_multi_fasta.pl
/usr/share/cct/lib/sequence_to_multi_fasta/test.sh
/usr/share/cct/lib/sequence_to_multi_fasta/test_input/test_seq.fasta
/usr/share/cct/scripts/build_blast_atlas.sh
/usr/share/cct/scripts/build_blast_atlas_all_vs_all.sh
/usr/share/cct/scripts/cgview_comparison_tool.pl
/usr/share/cct/scripts/convert_vcf_to_features.pl
/usr/share/cct/scripts/create_zoomed_maps.sh
/usr/share/cct/scripts/fetch_all_refseq_bacterial_genomes.sh
/usr/share/cct/scripts/fetch_all_refseq_chloroplast_genomes.sh
/usr/share/cct/scripts/fetch_all_refseq_mitochondrial_genomes.sh
/usr/share/cct/scripts/fetch_genome_by_accession.sh
/usr/share/cct/scripts/fetch_refseq_bacterial_genomes_by_name.sh
/usr/share/cct/scripts/generic
/usr/share/cct/scripts/ncbi_search.pl
/usr/share/cct/scripts/redraw_maps.sh
/usr/share/cct/scripts/remove_long_seqs.sh
/usr/share/cct/scripts/remove_short_seqs.sh
/usr/share/doc/cct/README.test
/usr/share/doc/cct/changelog.Debian.gz
/usr/share/doc/cct/copyright
/usr/share/man/man1/build_blast_atlas.1.gz
/usr/share/man/man1/build_blast_atlas_all_vs_all.1.gz
/usr/share/man/man1/cgview_comparison_tool.1.gz
/usr/share/man/man1/convert_vcf_to_features.1.gz
/usr/share/man/man1/create_zoomed_maps.1.gz
/usr/share/man/man1/fetch_all_refseq_bacterial_genomes.1.gz
/usr/share/man/man1/fetch_all_refseq_chloroplast_genomes.1.gz
/usr/share/man/man1/fetch_all_refseq_mitochondrial_genomes.1.gz
/usr/share/man/man1/fetch_genome_by_accession.1.gz
/usr/share/man/man1/fetch_refseq_bacterial_genomes_by_name.1.gz
/usr/share/man/man1/ncbi_search.1.gz
/usr/share/man/man1/redraw_maps.1.gz
/usr/share/man/man1/remove_long_seqs.1.gz
/usr/share/man/man1/remove_short_seqs.1.gz
/usr/share/perl5/Util/Configurator.pm
/usr/share/perl5/Util/LogManager.pm