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Wiki markup for Saureus 101 all2

{| {{table}} | align="center" style="background:#f0f0f0;"|'''Name''' | align="center" style="background:#f0f0f0;"|'''NumContigs''' | align="center" style="background:#f0f0f0;"|'''NumRefReplicons''' | align="center" style="background:#f0f0f0;"|'''NumAssemblyBases''' | align="center" style="background:#f0f0f0;"|'''NumReferenceBases''' | align="center" style="background:#f0f0f0;"|'''NumLCBs''' | align="center" style="background:#f0f0f0;"|'''DCJ_Distance''' | align="center" style="background:#f0f0f0;"|'''NumDCJBlocks''' | align="center" style="background:#f0f0f0;"|'''NumSNPs''' | align="center" style="background:#f0f0f0;"|'''NumMisCalled''' | align="center" style="background:#f0f0f0;"|'''NumUnCalled''' | align="center" style="background:#f0f0f0;"|'''NumGapsRef''' | align="center" style="background:#f0f0f0;"|'''NumGapsAssembly''' | align="center" style="background:#f0f0f0;"|'''TotalBasesMissed''' | align="center" style="background:#f0f0f0;"|'''PercBasesMissed''' | align="center" style="background:#f0f0f0;"|'''ExtraBases''' | align="center" style="background:#f0f0f0;"|'''PercExtraBases''' | align="center" style="background:#f0f0f0;"|'''MissingChromosomes''' | align="center" style="background:#f0f0f0;"|'''ExtraContigs''' | align="center" style="background:#f0f0f0;"|'''NumSharedBoundaries''' | align="center" style="background:#f0f0f0;"|'''NumInterLcbBoundaries''' | align="center" style="background:#f0f0f0;"|'''BrokenCDS''' | align="center" style="background:#f0f0f0;"|'''IntactCDS''' | align="center" style="background:#f0f0f0;"|'''ContigN50^''' | align="center" style="background:#f0f0f0;"|'''ContigN90''' | align="center" style="background:#f0f0f0;"|'''MinContigLength''' | align="center" style="background:#f0f0f0;"|'''MaxContigLength''' | align="center" style="background:#eee685;"|'''N50^''' | align="center" style="background:#eee685;"|'''Blast''' | align="center" style="background:#f0f0f0;"|'''Units(>200)''' | align="center" style="background:#f0f0f0;"|'''N50^''' | align="center" style="background:#f0f0f0;"|'''cor.Units''' | align="center" style="background:#f0f0f0;"|'''cor.N50''' | align="center" style="background:#f0f0f0;"|'''Error,(Indel>=5,Inv,Rel)''' |- | A_E.m2.fasta||515||3||2854449||2903081||24||497||500||118||117||1||367||428||69972||2.4103||8167||0.2861||0||29||1||11||190||2503||10112||2917||121||35461||10276||2336||499||10066||509||10066||10,(2,1,7) |- | A_S.m2.fasta||397||3||2854941||2903081||24||371||373||297||296||1||357||317||69065||2.379||9831||0.3444||0||38||1||11||126||2567||13726||4257||104||53213||13838||2448||363||13726||375||13321||10,(4,1,5) |- | A_V.m2.fasta||366||3||2860815||2903081||38||363||365||274||273||1||346||303||76398||2.6316||18118||0.6333||0||26||1||14||127||2566||15011||4524||102||54747||15358||2462||329||15011||346||14746||17,(7,5,5) |- | E_A.m2.fasta||518||3||2859069||2903081||23||500||503||128||127||1||373||433||69831||2.4054||12798||0.4476||0||28||1||11||193||2500||10107||2917||121||35461||10112||2336||502||10066||511||10066||10,(2,1,7) |- | E_S.m2.fasta||455||3||2871820||2903081||9||432||434||177||176||1||406||361||64401||2.2184||16572||0.5771||0||28||1||3||144||2549||10982||3585||127||52790||11010||2413||440||10982||444||10953||7,(2,0,5) |- | E_V.m2.fasta||388||3||2876739||2903081||24||374||378||321||320||1||325||336||64801||2.2321||21625||0.7517||0||28||1||7||124||2569||13310||3911||127||54726||13398||2446||376||13310||393||13005||18,(7,4,7) |- | S_A.m2.fasta||405||3||2858992||2903081||24||374||375||128||127||1||352||308||72905||2.5113||12607||0.441||0||42||1||13||126||2567||13484||4327||104||53213||13726||2446||367||13484||378||13321||9,(3,0,6) |- | S_E.m2.fasta||453||3||2870902||2903081||12||429||431||189||188||1||406||357||65504||2.2564||16228||0.5653||0||30||1||5||147||2546||10982||3585||127||52790||11010||2411||438||10982||442||10953||6,(2,0,4) |- | S_V.m2.fasta||418||3||2852937||2903081||15||379||380||143||142||1||373||335||79576||2.7411||17438||0.6112||0||44||1||10||138||2555||13753||4331||104||54766||13796||2429||379||13753||392||13317||17,(8,4,5) |- | V_A.m2.fasta||356||3||2870916||2903081||23||344||346||339||338||1||328||290||65892||2.2697||17299||0.6026||0||26||1||8||124||2569||16840||4553||102||54747||16984||2482||322||16840||338||15660||20,(7,5,8) |- | V_E.m2.fasta||387||3||2874341||2903081||22||364||367||229||228||1||315||327||65774||2.2657||18885||0.657||0||33||1||10||124||2569||13398||4062||127||54726||13460||2447||374||13398||390||13005||19,(7,4,8) |- | V_S.m2.fasta||391||3||2851783||2903081||25||363||364||139||138||1||354||318||79432||2.7361||16040||0.5625||0||38||1||15||135||2558||14883||4444||104||54766||14940||2444||360||14883||375||14286||17,(8,4,5) |- | A_E.gaa.fa.fas||667||3||2864202||2903081||14||578||578||211||207||4||426||493||68933||2.3745||9605||0.3353||0||97||1||7||206||2487||9223||2509||100||35461||9229||2309||548||9154||554||9115||7,(2,0,5) |- | A_S.gaa.fa.fas||681||3||2870009||2903081||17||588||589||148||142||6||464||488||66966||2.3067||13688||0.4769||0||101||1||9||213||2480||9229||2542||100||35460||9243||2313||548||9154||556||9115||8,(2,0,6) |- | A_V.gaa.fa.fas||667||3||2867252||2903081||14||584||585||163||157||6||452||497||67349||2.3199||12645||0.441||0||89||1||8||212||2481||9229||2523||100||35459||9238||2314||548||9216||556||9115||9,(2,1,6) |- | E_A.gaa.fa.fas||3307||3||2580131||2903081||6||3137||3139||331||329||2||2943||3027||374365||12.8954||17298||0.6704||0||173||1||2||780||1913||1265||363||100||8680||1266||1066||2681||1095||2680||1094||6,(2,0,4) |- | E_S.gaa.fa.fas||3305||3||2579087||2903081||6||3133||3135||300||299||1||2948||3026||376278||12.9613||17107||0.6633||0||175||1||2||782||1911||1265||363||100||8682||1266||1065||2686||1091||2686||1090||4,(1,0,3) |- | E_V.gaa.fa.fas||3293||3||2571324||2903081||6||3135||3137||258||257||1||2945||3030||381203||13.131||16884||0.6566||0||161||1||2||782||1911||1266||363||100||8708||1268||1061||2683||1086||2682||1085||5,(1,0,4) |- | S_A.gaa.fa.fas||676||3||2882281||2903081||3||516||517||115||113||2||482||432||67764||2.3342||13224||0.4588||0||161||1||2||155||2538||9626||3061||100||47607||9762||2374||509||9626||509||9626||3,(2,0,1) |- | S_E.gaa.fa.fas||676||3||2880039||2903081||3||514||515||77||76||1||477||433||68261||2.3513||13610||0.4726||0||163||1||2||152||2541||9697||3047||100||47739||9791||2364||509||9697||511||9697||3,(2,0,1) |- | S_V.gaa.fa.fas||677||3||2877349||2903081||3||529||530||126||125||1||500||462||67656||2.3305||12545||0.436||0||149||1||2||159||2534||9626||3133||100||47607||9762||2363||509||9626||511||9626||3,(2,0,1) |- | V_A.gaa.fa.fas||484||3||2873624||2903081||17||413||413||245||228||17||393||353||61932||2.1333||10100||0.3515||0||81||1||8||140||2553||13398||4000||101||54747||13484||2455||386||13398||397||13138||18,(9,4,5) |- | V_E.gaa.fa.fas||504||3||2866775||2903081||20||430||431||238||222||16||373||383||64084||2.2074||8999||0.3139||0||86||1||8||133||2560||12962||3789||101||54726||13005||2433||405||12685||422||12217||19,(10,4,5) |- | V_S.gaa.fa.fas||510||3||2867597||2903081||16||438||438||150||133||17||421||383||64380||2.2176||10117||0.3528||0||81||1||8||148||2545||13045||3811||100||54766||13168||2426||403||12685||420||12217||19,(10,4,5) |- | |} [^] Please note that the ContigN50 calculated by Mauve Assembly Metrics is incorrect (off-by-one error). We have followed the definition of N50 (''A contig N50 is calculated by first ordering every contig by length from longest to shortest. Next, starting from the longest contig, the lengths of each contig are summed, until this running sum equals one-half of the total length of all contigs in the assembly. The contig N50 of the assembly is the length of the shortest contig in this list.'' [http://www.ncbi.nlm.nih.gov/pubmed/22510764 ref]) to calculate N50s. GAGE's N50 was calculated using the total reference genome length rather than the sum total of contig lengths. The GAGE's cor.N50 values were computed after correcting contigs by breaking them at each error.