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Table 4 ContigExtender results on Animal datasets using MetaSPAdes as seed contigs

From: ContigExtender: a new approach to improving de novo sequence assembly for viral metagenomics data

Contig ID Library Meta SPAdes (bp) Contig Extender (bp) Gained length (bp) Gained (%) Aligned (bp) Aligned (%) Viral genome Genome size (bp) Gained genome (%) PRICE (bp) GenSeed (bp) Kollector (bp)
1 Dog-pool 5521 9826 4305 78 9760 99 uncultured_crAssphage (NC_024711.1) 97,065 4    
2 Fish1-pool 2723 7064 4341 159 6878 97 Enterococcus_virus_phiSHEF5 (NC_042023.1) 41,598 10    
3 Mosquito-pool20 3074 10,130 7056 230 9699 96 Culex_Iflavi-like_virus_4 (NC_040716.1) 9698 73    
4 Mosquito-pool20 3042 10,130 7088 233 9699 96 Culex_Iflavi-like_virus_4 (NC_040716.1) 9698 73    
5 Mosquito-pool27 4106 10,095 5989 146 7030 70 Culex_Iflavi-like_virus_4 (NC_040716.1) 9698 62    
6 Mosquito-pool27 6011 10,069 4058 68 10,068 100 Alphamesonivirus_1 (NC_015874.1) 20,192 20    6742
7 Mosquito-pool27 5638 10,016 4378 78 9673 97 Culex_Iflavi-like_virus_4 (NC_040574.1) 9698 45 7820   
8 Mosquito-pool20 3689 9872 6183 168 9699 98 Culex_Iflavi-like_virus_4 (NC_040716.1) 9698 64    
9 Mosquito-pool27 2430 2674 244 10 2626 98 Culex-associated_Tombus-like_virus (NC_040575.1) 2645 9    
10 Mosquito-pool27 1786 2131 345 19 2052 96 Hubei_mosquito_virus_4 (NC_032231.1) 4971 7    
  1. Columns 3–14 are: 3) seed contig length generated by MetaSPAdes; 4) extended contig length from seed contig; 5) gained length from ContigExtender (column 4 subtracted by column 3); 6) Gained length as percentage of seed contig (column 5 divided by column 3); 7) the largest contiguous segment length of extended contig that are aligned to reference genome; 8) percentage of the alignment segment of the extend contig; 9) reference viral genome; 10) viral genome size; 11) gained length from ContigExtender as percentage of viral genome (column 5 divided by column 10); 12) gained extension by PRICE; 13) gained extension by GenSeed; 14) gained extension by Kollector. Entries in the PRICE, GenSeed, and Kollector columns are blank if they produced no extension