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data sheet
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| Array design description | |||||||||
| FORMAT | |||||||||
| ARRAYBATCH | Simon Rasmussen, Henrik Bjørn Nielsen and Hanne Jarmer*. (2009) The transcriptionally active regions in the genome of Bacillus subtilis, Molecular Microbiology, 73, 1043–1057 | The array design specification consists of the description of the common features of the array as the whole, and the description of each array design elements (e.g., each spot). Following terminology used in MAGE, we distinguish between three levels of array design elements: feature - the location on the array, reporter - the nucleotide sequence present in a particular location on the array, and composite sequence - a set of reporters used collectively to measure an expression of a particular gene, exon, or splice-variant. The details that should be given of each of them are described below. | |||||||
| ARRAYBATCHNAME | Tiling Array | * array design name | |||||||
| ARRAYTYPE | Nimblegen | * platform type: in situ synthesized, spotted or other | |||||||
| SPOTPARAMID | BaSysBio Bacillus subtilis T1385K array version 1’ | database ID | |||||||
| NUMBERBLOCKSPERCHIP | * physical dimensions of array support (e.g. of slide) | ||||||||
| NUMBERBLOCKSHORIZ | 385000 | * number of features on the array | |||||||
| NUMBERBLOCKSVERTIC | |||||||||
| NUMBERROWSINBLOCK | |||||||||
| NUMBERCOLUMNSINBLOCK | date of production | ||||||||
| SPOTTINGDATE | |||||||||
| COMMENTS | something like surface and coating specification etc | ||||||||
| PROVIDERID | Nimblegen | * availability (e.g., for commercial arrays) or production protocol for custom made arrays | |||||||
| ARRAY | single array of certain array batch | ||||||||
| ARRAYID | |||||||||
| SOM03FS0 - SN: 1=37°C_Control - repl. 1 | |||||||||
| SOM03FS1 - SN: 2=37°C_Control - repl. 2 | |||||||||
| SOM03FS2 - SN: 3=37°C_Control - repl. 3 | |||||||||
| SOM03G3X - SN: 22=1.2M NaCl_-SMM - repl. 1 | |||||||||
| SOM03G3Y - SN: 23=1.2M NaCl_-SMM - repl. 2 | |||||||||
| SOM03G3Z - SN: 24=1.2M NaCl_-SMM - repl. 3 | |||||||||
| ARRAYBATCHID | |||||||||
| SUPPORTID | |||||||||
| COMMENTARE | |||||||||
| SLIDE_NB | |||||||||
| REPORTER | oligo/sequence on array , related information, common for all arrays in one batch | ||||||||
| RPROBEID | database ID | ||||||||
| SPOTPARAMID | database ID, foreign key to arraybatch | ||||||||
| TYPE | synthetic oligo-nucleotides | * the type of the reporter: synthetic oligo-nucleotides, PCR products, plasmids, colonies, other | |||||||
| STRAND | single stranded | * single or double stranded | |||||||
| SEQUENCE | |||||||||
| LENGHT | Simon Rasmussen, Henrik Bjørn Nielsen and Hanne Jarmer*. (2009) The transcriptionally active regions in the genome of Bacillus subtilis, Molecular Microbiology, 73, 1043–1057 | * approximate lengths if exact sequence not known | |||||||
| PROBETYPE | oligo, cDNA etc | ||||||||
| ACC NUMBER | * gene name and links to appropriate databases (e.g., SWISS-PROT, or organism specific databases), if known and relevant | ||||||||
| PROVIDER | |||||||||
| PROVIDERID | o sequence accession number in DDBJ/EMBL/GenBank, if exists | ||||||||
| ORGANISM | NCBI Accession number | ||||||||
| CHROMOSOMENR | |||||||||
| CHROM_BAND | |||||||||
| SYMBOL | standartized name of gene | ||||||||
| PLASMIDNR | |||||||||
| SYMBOL | |||||||||
| AMPLIFICATIONPROTOCOLID | database ID, foreign key to amplification protokol (separate) | ||||||||
| PURIFICATIONPROTOCOLID | database ID, foreign key to purification protokol (separate) | ||||||||
| PRODUCTIONDATE | |||||||||
| DNAYIELD | amount of DNA on the spot | ||||||||
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| II Experiment description | |||||||||
| INSTITUTE | Ernst-Moritz-Arndt-University of Greifswald | ||||||||
| INSTITUTEID | http://www.medizin.uni-greifswald.de/funkgenom/institute.html | database ID | |||||||
| INSTITUTENAME | Interfaculty Institute for Genetics and Functional Genomics | ||||||||
| Project_NAME | BaCell-SysMo | ||||||||
| LABNAME | Department of Functional Genomics | ||||||||
| NEW- "CONTACT DETAILS" | email: praveen.kumar@uni-greifswald.de Friedrich-Ludwig-Jahn-Straße 15 a 17487 Greifswald, Germany. | ||||||||
| whatever you need more | |||||||||
| EXPERIMENT | This section that is common to all the hybridizations done in the experiment, such as the goal, brief description, experimental factors tested. It includes the following. | ||||||||
| EXPERIMENTID | Continuous growth at 16°Cand Control culture at 37°C | database ID | |||||||
| EXPERIMENTNAME | |||||||||
| EXP_TYPE | Treatment type | * normal vs. diseased comparison or * treated vs. untreated comparison *time course | |||||||
| SUBMITTER | Praveen kumar sappa | ||||||||
| EXPLANATION | B. subtilis was grown in SMM at 1.2M NaCl and sample for RNA was harvested at OD1.0 at OD578 nm . Three biological replicates were analysed for Microarray. | Experimental factors, i.e. parameters or conditions tested, for instance, | |||||||
| START_DATE | |||||||||
| END_DATE | |||||||||
| praveen.kumar@uni-greifswald.de | |||||||||
| ORGANISM (for sample preparation) | |||||||||
| ORGANISMID | database ID | ||||||||
| NCBI ID | * organism (NCBI taxonomy) | ||||||||
| ORGANISMNAME | Bacillus subtilis (168 trp+) | Ecoli | |||||||
| STRAIN | 168 trp+ | o animal/plant strain or line | |||||||
| DEVELOPMENTAL_STAGE | o development stage | ||||||||
| INVIVOTREATMENT | * in vivo treatments (organism or individual treatments) | ||||||||
| GENOTYPE | 168 trp+ | o genetic variation (e.g., gene knockout, transgenic variation) | |||||||
| PHENOTYPE | o individual genetic characteristics (e.g., disease alleles, polymorphisms) | ||||||||
| SAMPLETREATMENTPROTOCOL (NEW - "STORAGE AND CULTURING PROCEDURES" ) | After harvesting cells rapidly they were centrifuged at 4 °C for 3 min at 8000 rpm. The cell pellets were frozen in liquid nitrogen and stored at -80 °C. | ||||||||
| GROW_MEDIUM | SMM | * growth conditions | |||||||
| GROW_TEMPERATURE | 37°C | * growth conditions | |||||||
| COMMENTS | |||||||||
| By a sample we understand the biological material (biomaterial), from which the nucleic acids have been extracted for subsequent labeling and hybridization. In this section all steps that precedes the hybridization with the array are described. We can usually distinguish between the source of the sample (bio-source, e.g., organism, cell type or line), its treatment, the extract preparation, and its labeling. | |||||||||
| CELLSOURCE | Biomaterial manipulations: laboratory protocol, including relevant parameters, e.g., | ||||||||
| CELLSOURCEID | database ID | ||||||||
| PATIENTID | database ID, foreign key to organism | ||||||||
| NEW- "Growth stage of culture" | exponentially phase and starvation | ||||||||
| NEW - "SAMPLE VOLUME_ML" | 15 OD units corresponding to harvesting time point. | ||||||||
| VOLUME_ML | 100 | ||||||||
| NUMB_OF_ALIQUOTS | 2 aliquots | ||||||||
| SAMPLE_CONDITION | 37°C_Control - repl. 1 | ||||||||
| 37°C_Control - repl. 2 | |||||||||
| 37°C_Control - repl. 3 | |||||||||
| 1.2M NaCl_-SMM - repl. 1 | |||||||||
| 1.2M NaCl_-SMM - repl. 2 | |||||||||
| 1.2M NaCl_-SMM - repl. 3 | |||||||||
| CELLSOURCEISOLDATE | Praveen kumar Sappa | ||||||||
| EXPERIMENTATOR | |||||||||
| COMMENT | |||||||||
| AGE_AT_SAMPLING | |||||||||
| DATEOFSAMPLEPREPARATION | |||||||||
| DNA, RNA etc isolation info | |||||||||
| NA_ISOLATION | preparation protocol for each extract prepared from the sample | ||||||||
| NAISOLATIONID | database ID | ||||||||
| CELLSOURCEID | database ID | ||||||||
| REFERENCE | extraction of total RNA | ||||||||
| TYPE | 2009-02-19T0:0:0+0000 | * whether total RNA, mRNA, or genomic DNA is extracted | |||||||
| NAISOLATIONDATE | |||||||||
| NAISOLATIONPROTOCOLID | RNA quality was checked with Nanodrop and Bioanalyzer | ||||||||
| NAISOLATIONCOMMENT | |||||||||
| NAMODIFICATION | DNA SONICATION, DNA-PROTEIN CROSSLINKING, Antibodies used and Immuno-precipitation, DNA ISOLATION | ||||||||
| YIELD_UG | |||||||||
| CONCENTRATION_UG_PER_ML NEW | Praveen kumar Sappa | ||||||||
| EXPERIMENTATOR | samples were treated with Rnase free Dnase I | ||||||||
| TREAT_DNASE | |||||||||
| CONC_TUB | Absence of DNA was checked with Bioanalyser | ||||||||
| CHECK_RESULT | |||||||||
| Samples used, extract preparation and labeling | |||||||||
| SAMPLE | |||||||||
| SAMPLEID | database ID | ||||||||
| NAISOLATIONID | database ID | ||||||||
| LABELTYPE | * label used (e.g., A-Cy3, G-Cy5, 33P, ..) | 5) External controls added to hybridization extract(s) (spiking controls) | |||||||
| NEW - "Labeling of control DNA" | |||||||||
| NEW - "Labeling of test DNA" | Hybridization was done at Roche NimbleGen, Inc | ||||||||
| LABELINGDATE | |||||||||
| LABELINGPROTOCOLID | |||||||||
| LABELINGCOMMENT | * label incorporation method | ||||||||
| LABELINCORPORATIONRATE | |||||||||
| LABELREFERENCEDATE | |||||||||
| SPIKEDNAQUANTITY_NG | * element on array expected to hybridize to spiking control | ||||||||
| SPIKINGID | * spike type (e.g., oligonucleotide, plasmid DNA, transcript) | ||||||||
| MIX_NAID | * spike qualifier (e.g., concentration, expected ratio, labelling methods if different than that of the extract) | ||||||||
| HYBRIDISATION | EXPERIMENTID | ||||||||
| NEW- "REPLICA OF EXPERIMENT" | Hybridization was done at Roche NimbleGen, Inc | ||||||||
| sampleid (mehrere möglich) | Reference is the pool of all the samples. Each sample contributes equal amount of RNA to the pool. | ||||||||
| HYBRIDISATIONID | database ID | ||||||||
| EXPERIMENTID | database ID | ||||||||
| ARRAYID | database ID | ||||||||
| HYBPROTID | |||||||||
| DATE_OF_HYBRIDISATION | |||||||||
| DESCRHYBINSTRUMENTS | |||||||||
| HYBPROTOCOL | * quantity of labeled target used | ||||||||
| - | * time, concentration, volume, temperature | ||||||||
| - | * description of the hybridization instruments | ||||||||
| - | * the solution (e.g., concentration of solutes), * wash procedure | ||||||||
| - | |||||||||
| COMMENTS | |||||||||
| Measurement data | We distinguish between three levels of data processing - raw data (images), image quantitations and gene expression data matrix. Each hybridization has at least one image, each image has a corresponding image quantitation table, where a row represents an array design element and a column to a different quantitation types, such as mean or median pixel intensity. Several quantitation tables can be combined using data processing metrics to obtain the 'final' gene expression measurement table associated with the experiment. | ||||||||
| * for each scan laboratory protocol for scanning, including scanning hardware and software, scan parameters, including laser power, spatial resolution, pixel space, PMT voltage; | |||||||||
| * scanned images; | |||||||||
| Image analysis and quantitation | |||||||||
| NEW -"RESULTS OF AGILENT FEATURE EXTRACTION (tab delimited txt))" | |||||||||
| NEW - "Normalisation method" | |||||||||
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| Name | Locus_tag | 37°C_Control - repl. 1 | 37°C_Control - repl. 2 | 37°C_Control - repl. 3 | 1.2M NaCl_-SMM - repl. 1 | 1.2M NaCl_-SMM - repl. 2 | 1.2M NaCl_-SMM - repl. 3 | ||||||||||||
| aadK | BSU26790 | 10.9301 | 11.1054 | 11.3988 | 11.3326 | 11.0724 | 11.2899 | ||||||||||||
| aag | BSU38620 | 8.8165 | 8.8547 | 8.7563 | 9.887 | 9.5196 | 9.761 | ||||||||||||
| aapA | BSU27090 | 8.7811 | 8.8582 | 8.8125 | 9.2132 | 8.9943 | 9.0517 | ||||||||||||
| abfA | BSU28720 | 7.3683 | 7.7298 | 7.8476 | 7.43 | 7.4793 | 7.4736 | ||||||||||||
| abh | BSU14480 | 12.7346 | 12.8521 | 13.0998 | 10.5862 | 10.5996 | 10.5094 | ||||||||||||
| abnA | BSU28810 | 6.8842 | 7.2707 | 7.4245 | 7.0042 | 7.2127 | 7.1197 | ||||||||||||
| abnB | BSU39330 | 9.6806 | 9.8548 | 9.7892 | 9.4366 | 9.1868 | 9.3791 | ||||||||||||
| abrB | BSU00370 | 13.17 | 13.1728 | 13.383 | 14.8163 | 14.5943 | 14.7877 | ||||||||||||
| accA | BSU29200 | 13.17 | 13.1318 | 13.3375 | 13.4078 | 13.2897 | 13.3053 | ||||||||||||
| accB | BSU24350 | 14.5092 | 14.7989 | 14.7443 | 14.9558 | 14.7256 | 14.8913 | ||||||||||||
| accC | BSU24340 | 14.5136 | 14.4651 | 14.6117 | 14.855 | 14.6372 | 14.6839 | ||||||||||||
| accD | BSU29210 | 14.0513 | 14.1969 | 14.3751 | 14.4383 | 14.1315 | 14.2939 | ||||||||||||
| acdA | BSU37170 | 9.3106 | 9.1306 | 9.2459 | 8.9884 | 9.0658 | 8.8968 | ||||||||||||
| ackA | BSU29470 | 12.8699 | 13.0418 | 13.1069 | 13.0228 | 12.724 | 12.9487 | ||||||||||||
| acoA | BSU08060 | 6.4727 | 6.9285 | 7.0518 | 7.7809 | 7.7169 | 7.617 | ||||||||||||
| acoB | BSU08070 | 6.671 | 7.137 | 7.245 | 7.6976 | 7.7177 | 7.7549 | ||||||||||||
| acoC | BSU08080 | 7.4596 | 7.5914 | 7.6693 | 7.8099 | 7.8647 | 7.813 | ||||||||||||
| acoL | BSU08090 | 7.5793 | 7.8455 | 7.8329 | 8.0749 | 8.0694 | 8.045 | ||||||||||||
| acoR | BSU08100 | 8.7622 | 8.9126 | 8.9562 | 9.8392 | 9.5114 | 9.778 | ||||||||||||
| acpA | BSU15920 | 15.6811 | 15.9781 | 16.0338 | 15.8927 | 15.8226 | 15.996 | ||||||||||||
| acpK | BSU17130 | 11.1515 | 11.2821 | 11.2255 | 12.2163 | 12.0673 | 12.1844 | ||||||||||||
| acpS | BSU04620 | 10.079 | 10.1551 | 10.2404 | 9.9905 | 9.7279 | 9.9567 | ||||||||||||
| acsA | BSU29680 | 12.0614 | 12.1181 | 12.3749 | 12.533 | 12.2126 | 12.4068 | ||||||||||||
| acuA | BSU29690 | 11.6841 | 11.8235 | 12.0962 | 12.1269 | 11.7855 | 12.0432 | ||||||||||||
| acuB | BSU29700 | 11.3401 | 11.3657 | 11.6634 | 11.7298 | 11.4976 | 11.6357 | ||||||||||||
| acuC | BSU29710 | 11.1307 | 11.2196 | 11.2365 | 11.5345 | 11.2346 | 11.2444 | ||||||||||||
| adaA | BSU01810 | 7.6208 | 7.8616 | 7.9631 | 8.1725 | 8.2017 | 8.1973 | ||||||||||||
| adaB | BSU01820 | 7.6931 | 7.8523 | 8.026 | 8.1087 | 8.2638 | 8.2195 | ||||||||||||
| adcA | BSU02850 | 9.5231 | 9.5754 | 9.6713 | 10.1636 | 9.9275 | 10.2317 | ||||||||||||
| adcB | BSU02870 | 9.6042 | 9.5392 | 9.6824 | 9.8319 | 9.8295 | 9.8483 | ||||||||||||
| adcC | BSU02860 | 9.6004 | 9.4563 | 9.5903 | 9.8072 | 9.6985 | 9.7188 | ||||||||||||
| addA | BSU10630 | 11.384 | 11.4919 | 11.6823 | 11.9083 | 11.5645 | 11.875 | ||||||||||||
| addB | BSU10620 | 11.0474 | 11.2675 | 11.35 | 11.7414 | 11.4758 | 11.7122 | ||||||||||||
| adeC | BSU14520 | 11.3966 | 11.234 | 11.1806 | 12.0733 | 11.7884 | 11.9739 | ||||||||||||
| adhA | BSU27010 | 8.0461 | 8.2433 | 8.4363 | 8.8969 | 8.8142 | 8.9084 | ||||||||||||
| adhB | BSU26970 | 9.6891 | 9.1608 | 8.9652 | 7.6569 | 7.9769 | 7.6403 | ||||||||||||
| adk | BSU01370 | 15.8668 | 15.8456 | 15.9819 | 15.5556 | 15.3181 | 15.6213 | ||||||||||||
| ahpC | BSU40090 | 14.9773 | 15.457 | 15.5015 | 15.3057 | 15.2208 | 15.4202 | ||||||||||||
| ahpF | BSU40100 | 14.7006 | 14.9795 | 15.1114 | 14.9289 | 14.9358 | 15.1293 | ||||||||||||
| ahrC | BSU24250 | 11.0254 | 11.1618 | 11.2475 | 11.6977 | 11.4657 | 11.5876 | ||||||||||||
| alaS | BSU27410 | 12.0126 | 12.0724 | 12.1125 | 11.7576 | 11.3754 | 11.5932 | ||||||||||||
| albA | BSU37370 | 11.8212 | 12.3257 | 12.3782 | 12.0646 | 11.8757 | 12.0752 | ||||||||||||
| albB | BSU37380 | 12.0174 | 12.719 | 12.7003 | 12.5915 | 12.1708 | 12.3304 | ||||||||||||
| albC | BSU37390 | 11.3386 | 11.6692 | 11.794 | 11.7362 | 11.4527 | 11.7226 | ||||||||||||
| albD | BSU37400 | 10.8197 | 11.4293 | 11.3336 | 11.2105 | 11.0966 | 11.2004 | ||||||||||||
| albE | BSU37410 | 9.7324 | 10.4885 | 10.3909 | 10.5515 | 10.249 | 10.391 | ||||||||||||
| albF | BSU37420 | 9.2508 | 9.9268 | 9.6495 | 9.9225 | 9.9302 | 9.8737 | ||||||||||||
| albG | BSU37430 | 9.1733 | 9.6285 | 9.5967 | 9.6308 | 9.5319 | 9.5187 | ||||||||||||
| ald | BSU31930 | 11.525 | 11.4645 | 11.4627 | 12.5959 | 12.3042 | 12.4075 | ||||||||||||
| aldX | BSU39860 | 7.7975 | 8.0281 | 8.2248 | 8.119 | 8.3221 | 8.4499 | ||||||||||||
| aldY | BSU38830 | 7.6876 | 7.804 | 7.8191 | 8.3683 | 8.4226 | 8.1648 | ||||||||||||
| alkA | BSU01800 | 9.7544 | 9.7492 | 9.8804 | 10.2493 | 10.0358 | 10.1271 | ||||||||||||
| alrA | BSU04640 | 11.6485 | 11.8139 | 11.6881 | 11.4154 | 11.1981 | 11.1404 | ||||||||||||
| alrB | BSU17640 | 8.7148 | 8.623 | 8.4162 | 8.1128 | 8.2474 | 7.9347 | ||||||||||||
| alsD | BSU36000 | 9.4763 | 9.3995 | 9.5963 | 11.0048 | 11.0238 | 10.9573 | ||||||||||||
| alsR | BSU36020 | 10.2309 | 10.5203 | 10.6466 | 10.7619 | 10.6503 | 10.7279 | ||||||||||||
| alsS | BSU36010 | 9.6373 | 9.6921 | 9.6297 | 11.0726 | 10.9045 | 10.8858 | ||||||||||||
| alsT | BSU18120 | 10.7052 | 10.6676 | 10.9222 | 10.6071 | 10.5368 | 10.4876 | ||||||||||||
| amhX | BSU03010 | 10.9649 | 11.0407 | 11.0747 | 12.2706 | 12.2556 | 12.0795 | ||||||||||||
| ampS | BSU14450 | 11.5591 | 11.7713 | 11.8086 | 12.1149 | 11.7993 | 11.8846 | ||||||||||||
| amtB | BSU36510 | 7.535 | 7.7911 | 7.7589 | 8.0299 | 7.9718 | 7.9253 | ||||||||||||
| amyC | BSU30290 | 9.0524 | 9.292 | 9.2817 | 9.2841 | 9.1782 | 9.2297 | ||||||||||||
| amyD | BSU30280 | 8.4693 | 8.8039 | 8.7591 | 8.7961 | 8.7182 | 8.7743 | ||||||||||||
| amyE | BSU03040 | 9.1566 | 9.3604 | 9.4392 | 10.3483 | 10.2549 | 10.005 | ||||||||||||
| amyX | BSU29930 | 10.5536 | 10.4224 | 10.5974 | 9.8924 | 9.8179 | 9.8829 | ||||||||||||
| ansA | BSU23580 | 10.0958 | 10.1269 | 10.2527 | 10.3578 | 10.056 | 10.3082 | ||||||||||||
| ansB | BSU23570 | 10.0549 | 10.1867 | 10.3297 | 10.4743 | 10.1175 | 10.3338 | ||||||||||||
| ansR | BSU23590 | 9.3646 | 9.2946 | 9.2353 | 9.778 | 9.9252 | 9.9169 | ||||||||||||
| ansZ | BSU02690 | 7.9705 | 8.2169 | 8.1581 | 8.1599 | 8.1164 | 8.053 | ||||||||||||
| antE | BSU25220 | 7.6725 | 7.9453 | 8.1121 | 8.307 | 8.9011 | 8.5502 | ||||||||||||
| appA | BSU11381 | 14.8441 | 14.882 | 15.2156 | 15.1299 | 15.0768 | 15.0141 | ||||||||||||
| appA | BSU11382 | 14.2602 | 14.2264 | 14.6797 | 14.7688 | 14.7614 | 14.6135 | ||||||||||||
| appB | BSU11390 | 12.6008 | 12.3972 | 12.5426 | 12.9917 | 12.9414 | 12.8503 | ||||||||||||
| appC | BSU11400 | 12.4675 | 12.487 | 12.6619 | 12.9931 | 12.9886 | 12.8687 | ||||||||||||
| appD | BSU11360 | 12.7127 | 12.3882 | 12.4817 | 13.1523 | 13.0352 | 12.862 | ||||||||||||
| appF | BSU11370 | 12.9046 | 12.7403 | 12.8052 | 13.305 | 13.1793 | 12.9263 | ||||||||||||
| aprE | BSU10300 | 9.934 | 10.0066 | 10.1155 | 10.6268 | 10.8091 | 10.5257 | ||||||||||||
| aprX | BSU17260 | 10.1385 | 9.5021 | 10.449 | 8.3815 | 8.4149 | 8.4192 | ||||||||||||
| apt | BSU27610 | 12.6464 | 12.6565 | 12.6722 | 12.3826 | 12.223 | 12.3668 | ||||||||||||
| araA | BSU28800 | 7.4973 | 7.81 | 7.9382 | 7.8848 | 7.866 | 7.8571 | ||||||||||||
| araB | BSU28790 | 7.324 | 7.6297 | 7.7216 | 7.5417 | 7.5566 | 7.5455 | ||||||||||||
| araD | BSU28780 | 7.3058 | 7.573 | 7.7536 | 7.6248 | 7.6053 | 7.5686 | ||||||||||||
| araE | BSU33960 | 6.9642 | 7.4737 | 7.4969 | 7.031 | 7.3131 | 7.2091 | ||||||||||||
| araL | BSU28770 | 7.2331 | 7.5556 | 7.5858 | 7.4674 | 7.4839 | 7.5131 | ||||||||||||
| araM | BSU28760 | 7.2611 | 7.5747 | 7.6417 | 7.4441 | 7.4982 | 7.4124 | ||||||||||||
| araN | BSU28750 | 7.3088 | 7.6413 | 7.8503 | 7.46 | 7.5096 | 7.5081 | ||||||||||||
| araP | BSU28740 | 7.3609 | 7.6851 | 7.7478 | 7.3393 | 7.5133 | 7.4021 | ||||||||||||
| araQ | BSU28730 | 7.1527 | 7.5639 | 7.665 | 7.3121 | 7.5051 | 7.4013 | ||||||||||||
| araR | BSU33970 | 10.35 | 10.3385 | 10.3872 | 10.3598 | 10.09 | 10.3542 | ||||||||||||
| arfM | BSU37290 | 6.6267 | 7.1428 | 7.1844 | 7.0957 | 7.3245 | 7.2562 | ||||||||||||
| argB | BSU11210 | 12.8821 | 13.0205 | 13.1256 | 13.5393 | 12.9035 | 13.0271 | ||||||||||||
| argC | BSU11190 | 12.5015 | 12.6913 | 12.5894 | 12.9544 | 12.4935 | 12.4749 | ||||||||||||
| argD | BSU11220 | 12.6785 | 12.9353 | 12.5942 | 13.0423 | 12.6206 | 12.735 | ||||||||||||
| argF | BSU11250 | 13.224 | 13.4622 | 13.3199 | 13.5946 | 13.1922 | 13.21 | ||||||||||||
| argG | BSU29450 | 13.4833 | 13.7122 | 13.6283 | 14.2023 | 13.7959 | 13.9391 | ||||||||||||
| argH | BSU29440 | 13.6931 | 13.9636 | 13.8948 | 14.3075 | 14.0988 | 14.1575 | ||||||||||||
| argI | BSU40320 | 10.76 | 10.67 | 10.8377 | 10.9954 | 10.9533 | 10.9619 | ||||||||||||
| argJ | BSU11200 | 12.8377 | 12.9996 | 12.8104 | 13.1181 | 12.7387 | 12.7954 | ||||||||||||
| argS | BSU37330 | 12.4996 | 12.5485 | 12.538 | 13.0197 | 12.5471 | 12.8512 | ||||||||||||
| aroA | BSU29750 | 14.9812 | 14.9723 | 15.1617 | 15.0757 | 14.9221 | 15.2115 | ||||||||||||
| aroB | BSU22700 | 13.8729 | 13.9066 | 14.1916 | 13.6396 | 13.3124 | 13.4848 | ||||||||||||
| aroC | BSU23080 | 10.9933 | 11.1445 | 11.2422 | 11.139 | 10.8833 | 10.9898 | ||||||||||||
| aroD | BSU25660 | 12.496 | 12.4045 | 12.5315 | 12.6452 | 12.2984 | 12.2692 | ||||||||||||
| aroE | BSU22600 | 13.3874 | 13.3905 | 13.4595 | 13.369 | 13.2858 | 13.5065 | ||||||||||||
| aroF | BSU22710 | 13.8989 | 13.8728 | 14.081 | 13.6876 | 13.2583 | 13.5158 | ||||||||||||
| aroH | BSU22690 | 14.3015 | 14.3509 | 14.3705 | 14.1131 | 13.7214 | 14.0483 | ||||||||||||
| aroK | BSU03150 | 10.814 | 10.5757 | 10.5236 | 10.5971 | 10.4332 | 10.5627 | ||||||||||||
| arsB | BSU25790 | 9.1623 | 9.2435 | 9.4774 | 9.1013 | 9.0483 | 9.0008 | ||||||||||||
| arsC | BSU25780 | 9.1754 | 9.3355 | 9.4826 | 9.2474 | 9.1494 | 9.0679 | ||||||||||||
| arsR | BSU25810 | 9.5338 | 9.7782 | 9.924 | 9.9762 | 9.8102 | 10.0419 | ||||||||||||
| artP | BSU23980 | 14.0306 | 13.9939 | 14.2009 | 13.5167 | 13.3532 | 13.3177 | ||||||||||||
| artQ | BSU23970 | 13.2575 | 13.4091 | 13.4153 | 12.6302 | 12.3974 | 12.4783 | ||||||||||||
| artR | BSU23960 | 13.2522 | 13.3538 | 13.4555 | 12.6502 | 12.5062 | 12.3537 | ||||||||||||
| asd | BSU16750 | 14.3744 | 14.4365 | 14.7458 | 14.3374 | 14.0964 | 14.3204 | ||||||||||||
| aseR | BSU05330 | 8.9362 | 8.9288 | 9.0574 | 8.8887 | 8.8582 | 8.8987 | ||||||||||||
| aslA | BSU39900 | 14.2309 | 14.384 | 14.7307 | 14.0476 | 13.76 | 14.0955 | ||||||||||||
| asnB | BSU30540 | 12.8305 | 12.8023 | 12.9744 | 12.5568 | 12.4234 | 12.5257 | ||||||||||||
| asnH | BSU39920 | 12.9094 | 13.1209 | 13.3808 | 12.4792 | 12.1653 | 12.647 | ||||||||||||
| asnO | BSU10790 | 10.6508 | 10.1857 | 10.1717 | 8.3307 | 8.6201 | 8.1072 | ||||||||||||
| asnS | BSU22360 | 13.0645 | 13.13 | 13.435 | 13.0924 | 12.9821 | 13.1072 | ||||||||||||
| aspB | BSU22370 | 13.925 | 13.9593 | 14.1605 | 14.0452 | 13.7938 | 14.0369 | ||||||||||||
| aspS | BSU27550 | 12.9216 | 13.0096 | 13.3095 | 12.7963 | 12.657 | 12.7614 | ||||||||||||
| atpA | BSU36830 | 15.0598 | 15.4809 | 15.5364 | 14.7805 | 14.6321 | 14.9213 | ||||||||||||
| atpB | BSU36870 | 14.7779 | 15.0778 | 15.1153 | 14.5056 | 14.3713 | 14.587 | ||||||||||||
| atpC | BSU36800 | 13.8165 | 14.1774 | 14.3428 | 13.6828 | 13.628 | 13.8189 | ||||||||||||
| atpD | BSU36810 | 13.9952 | 14.4736 | 14.5554 | 13.8482 | 13.666 | 13.9327 | ||||||||||||
| atpE | BSU36860 | 14.9554 | 15.319 | 15.2919 | 14.7641 | 14.4984 | 14.7662 | ||||||||||||
| atpF | BSU36850 | 15.435 | 15.6251 | 15.8664 | 15.0611 | 14.7655 | 15.0543 | ||||||||||||
| atpG | BSU36820 | 15.1328 | 15.4957 | 15.794 | 14.963 | 14.6639 | 14.8864 | ||||||||||||
| atpH | BSU36840 | 15.336 | 15.578 | 15.617 | 14.9516 | 14.7559 | 14.9641 | ||||||||||||
| atpI | BSU36880 | 13.3428 | 13.6773 | 14.0857 | 13.1402 | 12.9909 | 13.2468 | ||||||||||||
| azlB | BSU26720 | 9.9029 | 10.0498 | 10.0895 | 10.6808 | 10.438 | 10.7296 | ||||||||||||
| azlC | BSU26710 | 9.2909 | 9.5309 | 9.6393 | 10.0725 | 9.9387 | 10.008 | ||||||||||||
| azlD | BSU26700 | 9.4674 | 9.6765 | 9.5652 | 10.2133 | 9.9746 | 9.986 | ||||||||||||
| bacA | BSU37740 | 12.3769 | 12.3381 | 12.2193 | 11.5224 | 11.5438 | 11.5918 | ||||||||||||
| bacB | BSU37730 | 12.1636 | 12.2072 | 12.1275 | 11.4493 | 11.3484 | 11.4689 | ||||||||||||
| bacC | BSU37720 | 12.2366 | 12.1848 | 12.2906 | 11.2954 | 11.1426 | 11.2528 | ||||||||||||
| bacD | BSU37710 | 12.1869 | 12.1841 | 12.2348 | 11.2863 | 11.1433 | 11.2036 | ||||||||||||
| bacE | BSU37700 | 11.8638 | 11.7894 | 11.8116 | 10.8248 | 10.7998 | 10.84 | ||||||||||||
| bacF | BSU37690 | 11.3974 | 11.3915 | 11.4152 | 10.5408 | 10.7017 | 10.7555 | ||||||||||||
| bcd | BSU24080 | 12.1248 | 12.3933 | 12.381 | 12.2336 | 11.8412 | 12.3042 | ||||||||||||
| bceA | BSU30380 | 9.6445 | 9.5954 | 9.2347 | 8.0499 | 8.0328 | 8.0489 | ||||||||||||
| bceB | BSU30370 | 9.6881 | 9.545 | 9.3145 | 8.1176 | 8.204 | 8.1135 | ||||||||||||
| bceR | BSU30400 | 10.6563 | 10.7597 | 10.7435 | 10.4644 | 10.2995 | 10.3602 | ||||||||||||
| bceS | BSU30390 | 10.5035 | 10.6606 | 10.7405 | 10.4531 | 10.3281 | 10.4352 | ||||||||||||
| bcrC | BSU36530 | 12.4309 | 12.2767 | 12.263 | 11.079 | 11.185 | 11.1883 | ||||||||||||
| bcsA | BSU22050 | 8.1018 | 7.9489 | 7.8996 | 7.5684 | 7.8573 | 7.714 | ||||||||||||
| bdbA | BSU21460 | 14.4908 | 14.9299 | 15.2045 | 13.246 | 12.8282 | 13.6625 | ||||||||||||
| bdbB | BSU21440 | 13.878 | 14.1814 | 14.7127 | 13.1377 | 12.8653 | 13.7083 | ||||||||||||
| bdbC | BSU33470 | 12.0882 | 12.239 | 12.4918 | 12.257 | 12.298 | 12.3992 | ||||||||||||
| bdbD | BSU33480 | 12.7542 | 12.8634 | 12.9865 | 13.0172 | 12.7342 | 12.8822 | ||||||||||||
| bdhA | BSU06240 | 14.1588 | 14.2671 | 14.4715 | 13.1909 | 12.9334 | 13.1724 | ||||||||||||
| besA | BSU32010 | 11.2057 | 11.8583 | 12.1989 | 15.2939 | 15.0926 | 15.2465 | ||||||||||||
| bglA | BSU40110 | 8.7507 | 9.0893 | 9.0885 | 8.2259 | 8.2261 | 8.4322 | ||||||||||||
| bglC | BSU03410 | 7.6575 | 7.8259 | 7.8854 | 8.2073 | 8.7419 | 8.3819 | ||||||||||||
| bglH | BSU39260 | 10.6938 | 11.0781 | 11.3013 | 10.9664 | 10.2779 | 10.7939 | ||||||||||||
| bglP | BSU39270 | 10.5619 | 10.7007 | 10.8876 | 10.8114 | 10.1918 | 10.5758 | ||||||||||||
| bglS | BSU39070 | 8.5998 | 8.8149 | 9.272 | 9.45 | 9.2746 | 9.3029 | ||||||||||||
| bhlA | BSU21420 | 6.6832 | 7.0863 | 7.2539 | 7.4058 | 7.8624 | 7.6669 | ||||||||||||
| bhlB | BSU21430 | 7.4683 | 7.7754 | 7.9246 | 8.2152 | 8.4789 | 8.3666 | ||||||||||||
| bioB | BSU30200 | 13.3481 | 13.3902 | 13.5605 | 14.5541 | 14.3423 | 14.5328 | ||||||||||||
| bioD | BSU30210 | 13.3487 | 13.5182 | 13.7582 | 14.8361 | 14.5905 | 14.8125 | ||||||||||||
| bioF | BSU30220 | 13.8897 | 13.9812 | 14.0733 | 15.0957 | 14.9526 | 15.1159 | ||||||||||||
| bioI | BSU30190 | 11.7123 | 11.7792 | 11.8715 | 13.2644 | 12.9973 | 13.0222 | ||||||||||||
| bioK | BSU30230 | 13.8374 | 13.8793 | 14.0396 | 15.0615 | 14.9033 | 15.1031 | ||||||||||||
| bioW | BSU30240 | 13.8905 | 14.1013 | 14.2225 | 15.2153 | 14.8948 | 15.1981 | ||||||||||||
| bioY | BSU10370 | 11.9876 | 11.8679 | 11.8427 | 13.4162 | 13.3528 | 13.2187 | ||||||||||||
| bioYB | BSU32030 | 13.4589 | 13.4344 | 13.6364 | 14.9453 | 14.7813 | 14.8567 | ||||||||||||
| bipA | BSU14770 | 12.96 | 13.0888 | 13.2502 | 12.5148 | 12.3716 | 12.4762 | ||||||||||||
| birA | BSU22440 | 11.7052 | 11.6325 | 11.7287 | 11.6395 | 11.2923 | 11.4982 | ||||||||||||
| bkdAA | BSU24050 | 12.2766 | 12.4838 | 12.34 | 12.0742 | 11.6718 | 12.169 | ||||||||||||
| bkdAB | BSU24040 | 11.8965 | 11.9704 | 11.9863 | 11.8404 | 11.4424 | 11.9232 | ||||||||||||
| bkdB | BSU24030 | 11.9798 | 12.0878 | 12.1557 | 12.0214 | 11.589 | 11.9301 | ||||||||||||
| bkdR | BSU24100 | 9.6442 | 9.6745 | 9.7876 | 9.6876 | 9.309 | 9.4002 | ||||||||||||
| blt | BSU26590 | 7.0536 | 7.3232 | 7.5121 | 7.5831 | 7.9102 | 7.6536 | ||||||||||||
| bltD | BSU26600 | 7.5543 | 7.6609 | 7.8619 | 7.9629 | 8.0522 | 8.0395 | ||||||||||||
| bltR | BSU26580 | 8.9333 | 9.1376 | 9.3533 | 9.5994 | 9.2794 | 9.4425 | ||||||||||||
| blyA | BSU21410 | 6.5267 | 6.9881 | 7.1126 | 7.3063 | 7.4431 | 7.3464 | ||||||||||||
| bmr | BSU24010 | 8.323 | 8.3937 | 8.5283 | 9.3489 | 9.1599 | 9.217 | ||||||||||||
| bmrA | BSU34820 | 10.4721 | 10.4327 | 10.6098 | 10.7444 | 10.5537 | 10.6472 | ||||||||||||
| bmrR | BSU24020 | 8.8976 | 9.1853 | 9.3485 | 9.8588 | 9.7103 | 9.6671 | ||||||||||||
| bmrU | BSU24000 | 7.7906 | 7.8977 | 7.8935 | 8.5304 | 8.5117 | 8.3995 | ||||||||||||
| bofA | BSU00230 | 10.8847 | 10.7204 | 10.8873 | 10.6416 | 10.6889 | 10.4919 | ||||||||||||
| bofC | BSU27750 | 8.9181 | 8.7899 | 8.7546 | 8.9963 | 9.1773 | 8.9821 | ||||||||||||
| bpr | BSU15300 | 10.3916 | 10.6266 | 10.1242 | 12.2184 | 11.9871 | 12.3089 | ||||||||||||
| braB | BSU29600 | 9.3862 | 9.4 | 9.5635 | 9.5264 | 9.5211 | 9.1982 | ||||||||||||
| brnQ | BSU26690 | 9.4226 | 9.403 | 9.6403 | 9.9976 | 10.0067 | 10.0956 | ||||||||||||
| bsaA | BSU21900 | 11.7714 | 11.8093 | 11.7722 | 12.4469 | 12.1475 | 12.2858 | ||||||||||||
| bscR | BSU27170 | 10.2258 | 10.2928 | 10.5815 | 10.581 | 10.3984 | 10.664 | ||||||||||||
| bsdD | BSU03651 | 7.3628 | 7.6238 | 7.8869 | 9.6604 | 9.3668 | 9.9044 | ||||||||||||
| bsn | BSU32540 | 9.9282 | 9.9427 | 9.7939 | 10.0457 | 10.0454 | 10.2276 | ||||||||||||
| buk | BSU24070 | 11.8272 | 12.1624 | 12.1302 | 11.9066 | 11.3704 | 12.0414 | ||||||||||||
| cah | BSU03180 | 9.832 | 9.7711 | 9.8919 | 10.0513 | 9.7759 | 9.8704 | ||||||||||||
| carA | BSU11230 | 12.3477 | 12.6425 | 12.4847 | 12.8459 | 12.4578 | 12.4791 | ||||||||||||
| carB | BSU11240 | 12.9052 | 13.156 | 13.0334 | 13.4125 | 13.0957 | 13.0244 | ||||||||||||
| catD | BSU08230 | 9.0493 | 8.9078 | 8.9318 | 8.9427 | 9.1052 | 8.9738 | ||||||||||||
| catE | BSU08240 | 8.6842 | 8.5798 | 8.6297 | 8.5503 | 8.5718 | 8.7723 | ||||||||||||
| cca | BSU22450 | 11.5842 | 11.6543 | 11.915 | 11.7212 | 11.4924 | 11.5865 | ||||||||||||
| cccA | BSU25190 | 12.1261 | 12.4135 | 12.642 | 11.8533 | 11.8811 | 11.9626 |
