Table 9 Secondary assemblies by merging pairs of initial assemblies using CAP3 with default settings
From: Comparing de novo assemblers for 454 transcriptome data
Assembly 1 | Assembly 2 | Number of "Reads" (contigs) in Assembly 1 | Bases in Assembly 1 | Number of "Reads" (contigs) in Assembly 2 | Bases in Assembly 2 | Number of second-order contigs with "reads" from both assemblies | Bases in second-order contigs with "reads" from both assemblies |
|---|---|---|---|---|---|---|---|
MIRA | SeqMan | 35827 | 21339704 | 29969 | 21355682 | 18068 | 16293192 |
MIRA | Newbler 2.5 | 35827 | 21339704 | 21734 | 20066883 | 15951 | 15866051 |
Newbler 2.5 | SeqMan | 21734 | 20066883 | 29969 | 21355682 | 15783 | 15701053 |
CLC | Newbler 2.5 | 22746 | 14875522 | 21734 | 20066883 | 15778 | 15825663 |
CAP3 | MIRA | 24727 | 16733217 | 35827 | 21339704 | 15688 | 14243534 |
CLC | SeqMan | 22746 | 14875522 | 29969 | 21355682 | 15504 | 14679975 |
CAP3 | SeqMan | 24727 | 16733217 | 29969 | 21355682 | 15387 | 14824287 |
CLC | MIRA | 22746 | 14875522 | 35827 | 21339704 | 15334 | 14357031 |
CAP3 | Newbler 2.5 | 24727 | 16733217 | 21734 | 20066883 | 14275 | 14830304 |
CAP3 | CLC | 24727 | 16733217 | 22746 | 14875522 | 14149 | 13753398 |
Newbler 2.3 | Newbler 2.5 | 12019 | 14456476 | 21734 | 20066883 | 9733 | 13252303 |
MIRA | Newbler 2.3 | 35827 | 21339704 | 12019 | 14456476 | 9380 | 11731374 |
CLC | Newbler 2.3 | 22746 | 14875522 | 12019 | 14456476 | 8884 | 12318589 |
CAP3 | Newbler 2.3 | 24727 | 16733217 | 12019 | 14456476 | 8484 | 11426423 |
Newbler 2.3 | SeqMan | 12019 | 14456476 | 29969 | 21355682 | 8274 | 11452990 |