ApE (A Plasmid Editor) 2.0.30 Alpha
ApE is a small, easy-to-use plasmid editor. ApE was developed to be a small, easy-to-use plasmid editor.
ApE Features:
1. Runs in Windows (tested on 98, XP, NT), OS X(10.3, 10.4 and 10.5), and Linux/Unix
2.
ApE is a small, easy-to-use plasmid editor. ApE was developed to be a small, easy-to-use plasmid editor.
ApE Features:
1. Runs in Windows (tested on 98, XP, NT), OS X(10.3, 10.4 and 10.5), and Linux/Unix
2. Highlights restriction sites in the editing window
3. Accurately reflects Dam/Dcm blocking of enzyme sites
4. Highlights text using pre-defined and custom feature libraries
5. Shows translation, Tm, %GC, ORF of selected DNA in real-time
6. Reads DNA Strider, Fasta, Genbank and EMBL files
7. Saves files as DNA Strider-compatible or Genbank file format
8. Highlights and draws graphic maps using feature annotations from genbank and embl files
9. Directly BLASTs selected sequence at NCBI or wormbase
10. Text map shows DNA sequence, translation, and features as text-based graphics
11. Creates graphic restriction maps- linear or circular with features indicated
12. Connects graphic and text features with hyperlink double click
13. Saves graphics as encapsulated postscript or scalable vector graphics
14. Copy and save graphics as Windows metafiles (MS Windows only)
15. Virtual restriction digest
16. Draws pre-defined and user-defined DNA ladders
17. Connects bands to text by double-click
18. Reads ABI sequencing trace files
19. Sequences in ABI traces can be aligned directly to a reference sequence, with the alignment hyperlinked back to te trace.
20. Selects sites matching multiple criteria (union/intersection- cut frequency, site type) in all open windows
21. Selects sites that cut more often in one sequence than another (for snip-SNP detection or diagnostic digests)
22. Has user defined enzyme grouping to distiguish eg. enzymes currently in stock.
23. Allows users to define new enzymes by name and recognition site
24. Imports DNA Strider format files (simple enzyme, site lists) available from REBASEOther Features:
1. Most analysis windows are hyperlinked to their corresponding sequences, includes:
* Graphic Maps
* Text maps
* Virtual Digests
* Alignments (including ABI sequences)
* Silent Sites
* Translation
* Primer Find2. Uses custom feature definition libraries, which allow:
* Quick annotation of sequence
* Quick searching and highlighting of all available primers that you (or others) have that hybridize to a sequence
* Sequence to be annotated and visualized in multiple ways quickly and efficiently
* Graphic maps that show primer binding sites and all interesting sequence features3. Translates sequences with optional DNA alignment
4. Finds potential primers matching user criteria (length, Tm, %GC, self/other complementarity)
5. Aligns two DNA sequences (or any combination of sequence and ABI trace), with the alignment hyperlinked to the original sequence
6. Finds translationally silent restriction sites
7. Draws graphic ORF maps
ApE Plasmid Editor (M. Wayne Davis, Univ. Utah, U.S.A.) highlights and draws graphic maps using feature annotations from GenBank and EMBL files; creates graphic restriction maps - linear or circular with features indicated and allows BLAST analyses along with a number of other useful features. Before we start, you will need ApE (A Plasmid Editor). This is a free piece of software that allows you to view, annotate and edit sequence files. ApE- A Plasmid Editor. Edit, annotate and draw plasmid sequences. BCM Search Launcher -- Nucleic Acid Search tool. Provides DNA chromatogram and alignment views, facilitates evaluation of predictions and supports direct manual annotation. Compare sequences that differ slightly as a result of sequencing errors. Objective: 1) To use ApE to plan a cloning experiment.Before scientists proceed to cloning a gene. I was taught on how to use ApE for the purpose of planning to clone Bacillus subtilis amylase gene into pUC19 plasmid vector. The ATA sequence and restriction enzymes at the start and ends of the DNA fragment.neb.
ApE (A Plasmid Editor) Free Download Information: Free Download 64 is not responsible for software you are downloading nor for details provided about the software 'ApE (A Plasmid Editor) 2.0.30 Alpha' listed here, as the developer can modify information without notifying us. Even if we try to check the files for viruses, we cannot guarantee that they are safe and clean. For your own protection always scan downloaded files for viruses, spyware and malware.
|
Calculators & Converters New Downloads
EasyCargo 2.3
Before we start, you will need ApE (A Plasmid Editor). This is a free piece of software that allows you to view, annotate and edit sequence files. PSP72-synProteinC-NTAP-AphAI ISceI 3968 bp PTP leader IgG binding domain 1 IgG binding domain 2 [split] aphAI (kanR) IgG binding domain 1 [Split] IgG binding domain 2 [split]. A plasmid Editor. OSX Mavericks+: Click the icons above to download the latest ApE (v2.0.55, May 4,2018). If you think that ApE doesn't find all of the ClaI sites (or XbaI or BclI) that you KNOW are present in your sequence, turn off the Dam/Dcm methylation on your sequence and try again.
Truck and container loading software. Easy to learn. Unlimited load plan calculations, manual load plan adjustments. Real 3D visualization. Imperial(US) and Metric units. Weight distribution calculation. Available online. Full ver. 10 days for free!
Startup Product Manager 4.42
If you could look 1 year ahead, would you want to see? Startup Product Manager will help you calculate your business plan. Fine-tune cost-profit parameters as you want. See results graphically displayed over 48 months. Various simulations included.
Container Loading Calculator 2.3.0
Container Loading Calculator is smart, easy to use load planning application. Insert list of items or import them from Ms Excel file. Choose container or define your own, and click Load button. Calculation is done within one minute. 10d free!
Total XML Converter 3.5
Use Total XML Converter to convert XML to CSV, JSON, or PDF. It processes XML files in batches via user interface or command line. Download the free 30-day evaluation copy now!
Doxillion Plus for Mac 3.21
Doxillion Plus Converter Software for Mac is a multi-format converter and the fastest way to convert DOC, DOCX, PDF, WPS, Word, and many other file types. With this software, convert text documents within minutes.
Doxillion Document Converter Free 3.19
Doxillion Free Document Converter Software is a multi-format converter and the fastest way to convert DOC, DOCX, PDF, WPS, Word, and many other file types. With this free software, convert text documents within minutes.
Doxillion Plus Edition 3.12
Doxillion Plus Edition is a multi-format document converter and one of the fastest ways to convert DOC, DOCX, PDF, Word, and other formats. Use Doxillion Plus Edition to convert batches of documents easily.
Jack Free Calculator 1.2
Free calculator for Windows with an editable 'tape', ideal for everyday use. Performs four basic arithmetic operations, including percent and square root. No limitations on precision, controllable rounding-up. Text comments
Apex Image into PDF File 2.3.8.2
Image into PDF file application is useful Converter because it is easy to use and cheap utility for converting numerous images to PDF file. It consumes very less time & efforts for performing operations. You can work with JPG, JPEG, PNG, WMF, GIF etc
Calculators & Converters Popular Downloads
Calculator Prompter 2.7
Calculator Prompter is a math expression calculator. Calculator Prompter has a built-in error recognition system that helps you get correct results. With Calculator Prompter you can enter the whole expression, including brackets, and operators.
Easy PDF to Text Converter2.0.4 v2.0.4
Easy PDF to TEXT converter is a must have tool for document authors creating a lot of editable text based on existing PDF documents and citing other writings presented as PDF documents.
ESBCalc - Freeware Calculator 7.3
ESBCalc is a Freeware Windows Scientific Calculator with Infix Notation, Brackets, Scientific Functions, Memory, Paper Trail, Result History List and more. Now includes customising of the Colours used and customising how the Hints (ToolTips) appear.
Project Management Tutor 1.0
A freeware to introduce basics of project management. Highlights and explains all the jargons a project manager need to know in order to manage projects successfully. An ideal tool for a novice project manager.
Calculator++ 1.1.2
Java arbitrary-precision, scientific and unit conversion calculator for Windows, Linux, Mac and Solaris.
Desktop Calendar Reminder v1.56
Desktop Calendar Reminder is simple, compact and easy to use desktop calendar. It has digital clock, calendar and note's area for every day. There are options for changing calendar colors, fonts, style, and more.
AnyForm form software v5.0
AnyForm form software enables you to create, fill out, calculate and print out any form exactly, quickly and easily on your PC.
SmartCUT 2.3
SmartCUT is a professional cutting software package designed for panel cutting optimization. Using advanced algorithms, it generates the most optimized cutting patterns, providing for maximum material yield.
Easy Unit Converter 1.2
Easy Unit Converter converts temperature, length, area, volume, weight with a single button click. Easy Unit Converter includes about 50 most frequently used measurement units. This free tool is a handy help for everyone: a must have on your desktop
ME Consultant 2.0
This program is a collection of interactive machining calculators and data tables packaged inside a graphical interface. Calculators include detailed machining (mill, drill, turn), drill depth, volume and weight, and surface finish.
PopGene.S2 1.0.3380.20651 Beta
PopGene.S2: is a free program to study population genetics. It consists of eight modules, each one directed for one feature of population genetics.Modules are:
1. Allele and genotype frequencies representation
2.
ApE (A Plasmid Editor) Copyright Information: Free Download 64 does not host any 'ApE (A Plasmid Editor)' torrent files or links of ApE (A Plasmid Editor) 2.0.30 Alpha to any free file sharing/upload services including Rapidshare, YouSendIt, SendSpace, DepositFiles, Letitbit, MediaMax, LeapFile, zUpload, DivShare, MediaFire etc. All download links of 'ApE (A Plasmid Editor)' are direct full download from publisher site 'biologylabs.utah.edu' or their selected mirrors. Using warez version, crack, warez passwords, patches, serial numbers, registration codes, key generator, pirate key, keymaker or keygen for Easy Unit Converter 1.2 licence key is illegal and prevent future development of ApE (A Plasmid Editor) by its developer biologylabs.utah.edu.
Categories
Top Downloads
New Downloads
Ape Dna Editor
- home|
- latest|
- popular|
- submit|
- bookmark|
- rss feeds|
- link to us|
- privacy|
Ape Plasmid Editor Manual Free
ApE is a piece of free software by Wayne Davis at the University of Utah. (We’ve already installed it in the labs, but you can download your own copy at home for macs, windows, and unix). The easiest way to get your sequence(s) into ApE is to copy-and-paste. Be sure not to paste in the fasta label tags. You’ll notice it warns you if you have illegal letters (ie, not ATGC) and will remove them. To find Open Reading Frames (ORFs), you can use ‘Command+>,’ (That’s the Command key plus ‘shift’ plus ‘period’. The command key is the one with an Apple on it by the space bar.) to move through the sequence selecting open reading frames. You can translate selected ORFs by pressing Command+T (or select ‘Translate’ from the ‘ORFs’ menu). If you use the One-letter code, the translation will be consistent with the translation provided by Pubmed. To find particular sequences, press ‘Command+F’ or click on the ‘microscope’ icon or select ‘Find’ under the ‘Edit’ menu. Put the sequence you’re looking for into the search field and click ‘Find next’. You should be able to use this to find the transcription factor binding sites identified by JASPAR or from the BioinformaticsHandout. To annotate a sequence, make sure it’s highlighted and then select ‘New Feature’ from the ‘Features’ menu. Give the feature a name and use the pop-up menu at the bottom to identify the kind of feature, e.g. ‘Gene >, cds’ for the coding sequence or ‘Binding >, protein_bind’ for a transcription factor binding site). To print your annotated DNA map, under the ‘Enzyme’ menu select ‘Text Map’, which will give a formatted page showing the entire sequence with your annotations. You’ll notice that if you marked the coding sequence correctly, it will show you the translated amino acids. You can print this page out. Finally, note that APE has many other useful and whizbang features not described by this guide. There’s nothing stopping you from reading the manual or exploring the program further and discovering these features. Source.