contributors:team_2:run1
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contributors:team_2:run1 [2015/05/04 18:54] charles |
contributors:team_2:run1 [2015/09/02 16:18] (current) ceisenhart ↷ Page moved from soapdenovo2:run1 to contributors:team_2:run1 |
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| ==== Run 1 contig/scaffold statistics ==== | ==== Run 1 contig/scaffold statistics ==== | ||
| - | <-- Information for assembly Scaffold 'soapdenovo2_sparseGraph.scafSeq'.(cut_off_length < 100bp) --> | + | === Information for assembly Scaffold 'soapdenovo2_sparseGraph.scafSeq'.(cut_off_length < 100bp) === |
| | Size_includeN | 2064665199 | | | Size_includeN | 2064665199 | | ||
| | Size_withoutN | 1974393478 | | | Size_withoutN | 1974393478 | | ||
| | Scaffold_Num | 2030303 | | | Scaffold_Num | 2030303 | | ||
| + | | Mean_Size | 1016 | | ||
| + | | Median_Size | 131 | | ||
| + | | Longest_Seq | 60333 | | ||
| + | | Shortest_Seq | 100 | | ||
| + | | Singleton_Num | 1617596 | | ||
| + | | Average_length_of_break(N)_in_scaffold | 44 | | ||
| + | | Known_genome_size | NaN | | ||
| + | | Total_scaffold_length_as_percentage_of_known_genome_size | NaN | | ||
| - | Mean_Size 1016 | + | | scaffolds>100 | 1996626 | 98.34% | |
| + | | scaffolds>500 | 493758 | 24.32% | | ||
| + | | scaffolds>1K | 381668 | 18.80% | | ||
| + | | scaffolds>10K | 35884 | 1.77% | | ||
| + | | scaffolds>100K | 0 | 0.00% | | ||
| + | | scaffolds>1M | 0 | 0.00% | | ||
| - | Median_Size 131 | + | | Nucleotide_A | 587193873 | 28.44% | |
| + | | Nucleotide_C | 410937132 | 19.90% | | ||
| + | | Nucleotide_G | 402424364 | 19.49% | | ||
| + | | Nucleotide_T | 573838109 | 27.79% | | ||
| + | | GapContent_N | 90271721 | 4.37% | | ||
| + | | Non_ACGTN | 0 | 0.00% | | ||
| + | | GC_Content | 41.20% | (G+C)/(A+C+G+T) | | ||
| - | Longest_Seq 60333 | + | | N10 | 15739 | 10008 | |
| + | | N20 | 11476 | 25568 | | ||
| + | | N30 | 8922 | 46077 | | ||
| + | | N40 | 7049 | 72179 | | ||
| + | | N50 | 5554 | 105217 | | ||
| + | | N60 | 4235 | 147751 | | ||
| + | | N70 | 3007 | 205382 | | ||
| + | | N80 | 1765 | 293730 | | ||
| + | | N90 | 428 | 509432 | | ||
| - | Shortest_Seq 100 | + | | NG50 | NaN | NaN | |
| + | | N50_scaffold-NG50_scaffold_length_difference | NaN | | ||
| - | Singleton_Num 1617596 | + | === Information for assembly Contig 'soapdenovo2_sparseGraph.contig'.(cut_off_length < 100bp) === |
| - | Average_length_of_break(N)_in_scaffold 44 | + | |
| - | Known_genome_size NaN | + | | Size_includeN | 2051251797 | |
| - | Total_scaffold_length_as_percentage_of_known_genome_size NaN | + | | Size_withoutN | 2051251797 | |
| + | | Contig_Num | 3854379 | | ||
| + | | Mean_Size | 532 | | ||
| + | | Median_Size | 171 | | ||
| + | | Longest_Seq | 22512 | | ||
| + | | Shortest_Seq | 100 | | ||
| - | scaffolds>100 1996626 98.34% | + | | Contig>100 | 3819222 | 99.09% | |
| - | scaffolds>500 493758 24.32% | + | | Contig>500 | 980997 | 25.45% | |
| - | scaffolds>1K 381668 18.80% | + | | Contig>1K | 583671 | 15.14% | |
| - | scaffolds>10K 35884 1.77% | + | | Contig>10K | 891 | 0.02% | |
| - | scaffolds>100K 0 0.00% | + | | Contig>100K | 0 | 0.00% | |
| - | scaffolds>1M 0 0.00% | + | | Contig>1M | 0 | 0.00% | |
| - | Nucleotide_A 587193873 28.44% | + | | Nucleotide_A | 616192468 | 30.04% | |
| - | Nucleotide_C 410937132 19.90% | + | | Nucleotide_C | 432122415 | 21.07% | |
| - | Nucleotide_G 402424364 19.49% | + | | Nucleotide_G | 415271256 | 20.24% | |
| - | Nucleotide_T 573838109 27.79% | + | | Nucleotide_T | 587665658 | 28.65% | |
| - | GapContent_N 90271721 4.37% | + | | GapContent_N | 0 | 0.00% | |
| - | Non_ACGTN 0 0.00% | + | | Non_ACGTN | 0 | 0.00% | |
| - | GC_Content 41.20% (G+C)/(A+C+G+T) | + | | GC_Content | 41.31% | (G+C)/(A+C+G+T) | |
| - | N10 15739 10008 | + | | N10 | 4396 | 35101 | |
| - | N20 11476 25568 | + | | N20 | 3142 | 91078 | |
| - | N30 8922 46077 | + | | N30 | 2400 | 166140 | |
| - | N40 7049 72179 | + | | N40 | 1860 | 263478 | |
| - | N50 5554 105217 | + | | N50 | 1425 | 389550 | |
| - | N60 4235 147751 | + | | N60 | 1048 | 557252 | |
| - | N70 3007 205382 | + | | N70 | 694 | 796148 | |
| - | N80 1765 293730 | + | | N80 | 335 | 1214089 | |
| - | N90 428 509432 | + | | N90 | 149 | 2184169 | |
| - | NG50 NaN NaN | + | | NG50 | NaN | NaN | |
| - | N50_scaffold-NG50_scaffold_length_difference NaN | + | | N50_contig-NG50_contig_length_difference | NaN | |
| - | <-- Information for assembly Contig 'soapdenovo2_sparseGraph.contig'.(cut_off_length < 100bp) --> | + | | Number_of_contigs_in_scaffolds | 2236783 | |
| - | + | | Number_of_contigs_not_in_scaffolds(Singleton) | 1617596 | | |
| - | Size_includeN 2051251797 | + | | Average_number_of_contigs_per_scaffold | 5.4 | |
| - | Size_withoutN 2051251797 | + | |
| - | Contig_Num 3854379 | + | |
| - | Mean_Size 532 | + | |
| - | Median_Size 171 | + | |
| - | Longest_Seq 22512 | + | |
| - | Shortest_Seq 100 | + | |
| - | + | ||
| - | Contig>100 3819222 99.09% | + | |
| - | Contig>500 980997 25.45% | + | |
| - | Contig>1K 583671 15.14% | + | |
| - | Contig>10K 891 0.02% | + | |
| - | Contig>100K 0 0.00% | + | |
| - | Contig>1M 0 0.00% | + | |
| - | + | ||
| - | Nucleotide_A 616192468 30.04% | + | |
| - | Nucleotide_C 432122415 21.07% | + | |
| - | Nucleotide_G 415271256 20.24% | + | |
| - | Nucleotide_T 587665658 28.65% | + | |
| - | GapContent_N 0 0.00% | + | |
| - | Non_ACGTN 0 0.00% | + | |
| - | GC_Content 41.31% (G+C)/(A+C+G+T) | + | |
| - | + | ||
| - | N10 4396 35101 | + | |
| - | N20 3142 91078 | + | |
| - | N30 2400 166140 | + | |
| - | N40 1860 263478 | + | |
| - | N50 1425 389550 | + | |
| - | N60 1048 557252 | + | |
| - | N70 694 796148 | + | |
| - | N80 335 1214089 | + | |
| - | N90 149 2184169 | + | |
| - | + | ||
| - | NG50 NaN NaN | + | |
| - | N50_contig-NG50_contig_length_difference NaN | + | |
| - | + | ||
| - | Number_of_contigs_in_scaffolds 2236783 | + | |
| - | Number_of_contigs_not_in_scaffolds(Singleton) 1617596 | + | |
| - | Average_number_of_contigs_per_scaffold 5.4 | + | |
contributors/team_2/run1.1430765678.txt.gz · Last modified: 2015/05/04 18:54 by charles
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