B. cereus

Revision as of 31 July 2013 02:29 by admin (Comments | Contribs)

Bacillus cereus strain ATCC_10987. The B. cereus ATCC_10987 consists of a circular chromosome of 5,224,283 bp and one plasmid of 208,369 bp in length, respectively.


Read source

The paired-end illuminia read data of B. cereus were downloaded from Gage

Sequence assembly

There are eight assemblers, ABySS, CABOG, MaSuRCA, MIRA, SGA, SOAPdenovo, SPAdes 2.5, Velvet, used in the data, and the assembly results were downloaded from SPAdes 2.5

Contig integrator

All Contigs

Evaluation

  • Benchmark genome
B. cereus ATCC_10987
  • Evaluated by QUAST
QUAST (QUAST v2.1)
  • Score with QUAST:
Basic statisitcs ABySS CABOD MaSuRCA SGA SOAPdenovo SPAdes NumGapsAssembly TotalBasesMissed %Missed ExtraBases %Extra BrokenCDS IntactCDS ContigN50^ ContigN90 MaxContigLength N50^ Blast_IntactCDS Units(>200) N50^ cor.Units cor.N50^ Errors,(Indel>=5,Inv,Rel)
Abyss 659 2854631 590 132 6 436 499 70014 2.4117 7077 0.2479 207 2486 9223 2512 35459 9229 2305 548 9154 554 9115 7,(2,0,5)
Edena 3287 2557545 3143 224 1 2957 3033 390614 13.4552 15975 0.6246 784 1909 1256 359 8680 1256 1053 2679 1073 2680 1072 4,(1,0,3)
SOAPdenovo 674 2872327 522 85 1 482 437 71040 2.4471 10463 0.3643 154 2539 9626 3069 47607 9762 2361 509 9626 511 9626 3,(2,0,1)
Velvet 502 2858949 432 153 12 377 386 69466 2.3928 7682 0.2687 137 2556 12962 3811 54726 13005 2421 405 12685 422 12217 19,(10,4,5)
CISA 347 2866024 330 266 15 316 278 60323 2.0779 11406 0.398 121 2572 14992 4664 54747 15327 2482 322 14916 343 14743 20,(6,5,9)
GAA# 1287 2798306 1166 191 6 1069 1084 144098 4.9636 12985 0.4691 322 2371 8319 2459 36637 8374 2045 1035 8209 1040 8095 9,(4,1,4)
GAA* 1150 2827068 1022 219 7 970 952 123336 4.24845 17517 0.6216 292 2401 8977 2614 38358 9026 2123 919 8943 925 8835 10,(4,2,4)
MAIA (split4) 4 2924771 6 127 6767 504 505 87938 3.0291 115881 3.9621 146 2547 1426408 5502 1464437 1464437 2390 - - - - -
MAIA (split4&n) 505 2859291 498 105 120 478 407 103565 3.5674 24695 0.8637 141 2552 12570 3840 52790 12800 2376 404 12469 401 11838 2,(1,0,1)
minimus2# 421 2863142 399 206 1 359 343 70296 2.4214 15467 0.5400 142 2552 13049 3951 50951 13159 2425 396 13042 408 12725 13,(5,2,6)
minimus2* 302 2852733 302 276 1 308 272 90585 3.12 26239 0.92 114 2579 16577 5117 54766 16835 2468 299 16473 319 15528 22,(6,7,9)