第七章序列比对和数据库搜索 页码,10/2 在数据库搜索中,基本操作就是将查询序列和数据库中的主题序列作比对。比对结果是排列 好的 hit list,后面是一系列的单独的比对情况,以及不同的分值和统计值(如图7.9)。下 文将会详细介绍选择不同的搜索程序、序列数据库和不同的参数都会对搜索产生影响,而且 还有不同的界面,比如操作台命令、w形式和E-mai等。图7.10给出了一个使用Web界面进 行数据库搜索的例子。这种形式的一个优点就是对任何一个感兴趣的比对,全部注解和文献 应用都可以通过超文本简单方便地联接至原始的序列条目和相关的在线文献。 a The best score are: ini tn ini tI opt z-SC E(59248) gi |1706794 sp[ P49789 FHI T_HUMAN FRAGILE HI STIDI NE 996 996 1350. 4 0 gi170339sp|P49776|APh_ SCHPO B|S(5-NCLE0SM)43139539553622.8e-23 gi|1723425|sp|P49775|YD15 YEAST HYPOTHETI CAL24.8290171316428.12.9e-17 gi1724021|sp|0066| YHI T MYC TU HYPOTHETI CAL20.0178178184250.72.2e-07 qi|417124|sp|004344| HIT YEAST HITI PROTE|N(RFu159104157216.21.8e-05 gil41844|5p|P32084| YHIT SYNP7 HYPOTHETI CAL12.4139139140195.00.00028 gi|351828|sp|P47378| YHI T MYCGE HYPOTHETICAL15.6132132133183.90.0012 gil1169826|sp|P43424|GAL7 RAT GALACT0SE-1-PH0sPHA9797128169.70.0072 gi 418446 sp P32083 YHI T_MYCHR HYYPOTHETICAL 13 1 102 102 119 166.8 0. 01 gi|1708543|sp|P49773|1FK1 HUMAN PRC0TE|NK| NASE C8787118164.50.0014 gi|1724020sp|P49774| YHI T MYCLE HYPOTHETICAL17.013182117161.50.02 gi 1724019 sp[ P53795 YHI T_CAEEL HYPOTHETI CAL HI 98 116 161.5 0.02 gil70581|sp|P16436|1PK1_B0NPTE|NK| NASE C8686115160.40.023 gi 1730 003249|GAL7 MOUSE GALACT0sE-1-P0sp878712015930.027 gi|177047|sp|P42856|2B14MA|lE14 KD ZINC-B00N13279112156.30.04 gi1209081sp|P07902|GAL7_ HUMAN CALACT0SE-1-P0sH7878117154.80.048 gi|177046sp|P42855|ZB14BRAJ14KDZ|MC-B|NDN11576110154.50.05 gi|140775|sp|P26724| YHIT AZOBR HYPOTHETI CAL13.211565109152.60.064 qi|169852|spP31764|GAL7HA| N GALACTOSE-1-Posp6262104137.90.42 gil399p16550APA1 YEAST5′,5′-P-1,P-4-l10866103137.10.47 >>gi 1169826 sp P43424 GAL7_RAT GALACTOSE-1-PHOSPHATE UR(379 aa) ini tn: 97 ini t1: 97 opt: 128 Z-score: 169.7 EO: 0.0072 Smi th-Waterman score: 128: 30. 8% i denti ty in 107 aa over I ap file://E:wcb生物信息学(中译本)\第七章序列比对和数据库搜索.htm 2005-1-18೼᭄᥂ᑧ᧰㋶Ёˈ෎ᴀ᪡԰ህᰃᇚᶹ䆶ᑣ߫੠᭄᥂ᑧЁⱘЏ乬ᑣ߫԰↨ᇍDŽ↨ᇍ㒧ᵰᰃᥦ߫ དⱘhit listˈৢ䴶ᰃϔ㋏߫ⱘऩ⣀ⱘ↨ᇍᚙމˈҹঞϡৠⱘߚ੠ؐ㒳䅵ؐ˄བ೒7.9˅DŽϟ ᭛ᇚӮ䆺㒚ҟ㒡䗝ᢽϡৠⱘ᧰㋶⿟ᑣǃᑣ᭄߫᥂ᑧ੠ϡৠⱘখ᭄䛑Ӯᇍ᧰㋶ѻ⫳ᕅડˈ㗠Ϩ 䖬᳝ϡৠⱘ⬠䴶ˈ↨བ᪡԰ৄੑҸǃWWWᔶᓣ੠E-mailㄝDŽ೒7.10㒭ߎњϔϾՓ⫼Web⬠䴶䖯 㸠᭄᥂ᑧ᧰㋶ⱘ՟ᄤDŽ䖭⾡ᔶᓣⱘϔϾӬ⚍ህᰃᇍӏԩϔϾᛳ݈䍷ⱘ↨ᇍˈܼ䚼⊼㾷੠᭛⤂ ᑨ⫼䛑ৃҹ䗮䖛䍙᭛ᴀㅔऩᮍ֓ഄ㘨᥹㟇ॳྟⱘᑣ߫ᴵⳂ੠Ⳍ݇ⱘ೼㒓᭛⤂DŽ a The best score are: initn initl opt z-sc E(59248) gi|1706794|sp|P49789|FHIT_HUMAN FRAGILE HISTIDINE 996 996 996 1350.4 0 gi|1703339|sp|P49776|APH1_SCHPO BIS(5’-NUCLEOSYL) 431 395 395 536.2 2.8e-23 gi|1723425|sp|P49775|YD15_YEAST HYPOTHETICAL 24.8 290 171 316 428.1 2.9e-17 gi|1724021|sp|Q11066|YHIT_MYCTU HYPOTHETICAL 20.0 178 178 184 250.7 2.2e-07 gi|417124|sp|Q04344|HIT_YEAST HIT1 PROTEIN (ORF U 159 104 157 216.2 1.8e-05 gi|418447|sp|P32084|YHIT_SYNP7 HYPOTHETICAL 12.4 139 139 140 195.0 0.00028 gi|1351828|sp|P47378|YHIT_MYCGE HYPOTHETICAL 15.6 132 132 133 183.9 0.0012 Æ gi|1169826|sp|P43424|GAL7_RAT GALACTOSE-1-PHOSPHA 97 97 128 169.7 0.0072 gi|418446|sp|P32083|YHIT_MYCHR HYYPOTHETICAL 13.1 102 102 119 166.8 0.01 gi|1708543|sp|P49773|IPK1_HUMAN PROTEIN KINASE C 87 87 118 164.5 0.0014 gi|1724020|sp|P49774|YHIT_MYCLE HYPOTHETICAL 17.0 131 82 117 161.5 0.02 gi|1724019|sp|P53795|YHIT_CAEEL HYPOTHETICAL HIT- 98 98 116 161.5 0.02 gi|1170581|sp|P16436|IPK1_BOVIN PROTEIN KINASE C 86 86 115 160.4 0.023 gi|1730188|sp|Q03249|GAL7_MOUSE GALACTOSE-1-PHOSP 87 87 120 159.3 0.027 gi|1177047|sp|P42856|ZB14_MAIZE 14 KD ZINC-BIODIN 132 79 112 156.3 0.04 gi|1209081|sp|P07902|GAL7_HUMAN CALACTOSE-1-PHOSPH 78 78 117 154.8 0.048 gi|1177046|sp|P42855|ZB14_BRAJU 14 KD ZINC-BINDIN 115 76 110 154.5 0.05 gi|140775|sp|P26724|YHIT_AZOBR HYPOTHETICAL 13.2 115 65 109 152.6 0.064 gi|1169852|sp|P31764|GAL7_HAEIN GALACTOSE-1-PHOSP 62 62 104 137.9 0.42 gi|113999|sp|P16550|APA1_YEAST 5’,5’’’-P-1,P-4-TE 108 66 103 137.1 0.47 b >>gi|1169826|sp|P43424|GAL7_RAT GALACTOSE-1-PHOSPHATE UR (379 aa) initn: 97 init1: 97 opt: 128 z-score: 169.7 E(): 0.0072 Smith-Waterman score: 128; 30.8% identity in 107 aa overlap ㄀ϗゴᑣ߫↨ᇍ੠᭄᥂ᑧ᧰㋶ 义ⷕˈ10/28 file://E:\wcb\⫳⠽ֵᙃᄺ˄Ё䆥ᴀ˅?㄀ϗゴᑣ߫↨ᇍ੠᭄᥂ᑧ᧰㋶.htm 2005-1-18 Click to buy NOW! PDF-XCHANGE www.docu-track.com Click to buy NOW! PDF-XCHANGE www.docu-track.com