Graphics error: Drawing the picture into memory."To interrupt drawing, press a key.;When the picture appears, use the arrow keys to move around)and the <ESC> key to return to main menu.5Due to memory limitations, only part of the picture (
F Please provide a proper filename (with an optional pathname) for the ; file where your DNA sequence is. The current directory is \DRAWMAP.B The sequence file contains something that is composed of other B characters than 'ACGT' (it might be a title for the sequence). B Press 'Y' or <return> if this string should be ignored. B If it will not be ignored, the 'ACGT'-characters within it B are considered as a part of your sequence. A It is possible that, inspite of the overflow, all of your bases A were recorded. You can proceed with the bases actually read. 4 The hesitation is due to the 'other characters'. 4 Abandoning leads to reading another sequence file. 4 You can choose from entering the enzymes and their 4 recognition sequences either from a file (F) or 4 from the keyboard (K). In the latter case you can 4 store the set into a file. > Please provide a proper filename (with an optional pathname) > for the file where your restriction enzymes are with their 2 recognition sequences. The current directory is
\DRAWMAP. > Note: If you give a filename with no period (.), the name > will be extended with the extension .ENZ 7 Free format, also blank accepted. (max 20 characters) 7 Please provide with the recognition sequence for the 7 enzyme named above. In addition to A, C, G and T, you 7 can use the following caharacters;
P = A or G
Q = C or T
R = A or T
S = C or G
V = A or C
W = G or T
N = A,C,G or T < You can save your enzyme set for later use by giving it a < proper filename (with a path) by which you refer it later.
The current directory is \DRAWMAP. < Note: If you give a filename with no period (.), the name < will be extended with the extension .ENZ 4 Answer 'Y' if you decide to destroy the old file 4 with this name. ? Answer 'N' if you want to scan only the upper strand. ? Makes a difference with nonsymmetrical recognition sequences. U
*.enz
% You are interrupting this section ! % Please confirm by pressing ESC % U
9 The display shows now the number of recognition site 9 matches in your sequence for each of the restriction 9 enzymes tested. The 'active' enzymes will be shown 9 on your circular plasmid map or in the comment field 9 (the latter takes place if there are no matches for 9 the recognition sequence). The 'inactive' sites are 9 ignored. The enzyme names are color coded in the 9 following way: 9 no. of matches: 0 more
Pst1
active
inactive 9 There is an upper limit for the number of active # sites to be drawn on your map (
total). 9 You can move the cursor to each of the enzymes by 9 using the arrow keys. The state of the enzyme at 9 the cursor can be changed by hitting the following 9 keys:
space bar) change the state
+ ) change to active
- ) change to inactive 9 You can also make categorial changes by hitting keys 9 introduced on the following page... 9 Hitting the following keys make changes to the whole 9 set of enzymes:
9 + inactivate all enzymes where more 9 recognition site matches have been 9 found than the key indicates
* + inactivate all enzymes with no 9 recognition site matches
/ + activate all enzymes U
. <ESC> - back to selecting the enzymes
- page up and down
k<3u(
?<4u(
y<Ru
l<Su
_<Vu
R<Wu
E<1u
8<2u
+<3u
total
sites.
(max
allowed for ESC)U
\DRAWMAPP <F1> - info <ESC> - back to the main menu BIn this section you can start constructing your plasmid map from a@DNA sequence and search restriction enzyme cleavage sites in it.
There is enough memory for
bases.1Please enter the filename for your sequence file.
Press <return> for <No such file found. Please give a name for an existing file.
dmap.seq
.Disk space limiting. Sequence will be partial.
(Should the following string be ignored ?
It will be.
It won't be.
Reading . . .
bases&The sequence does not fit into memory.-Removing of any memory resident programs will&allow larger sequences to be analyzed. bases have been read from file #Do you want to continue with these
bases ?.Sequence statistics (only bases are recorded):
bases
blanks numbers
other characters
, such as:
occurences of:
Abandon the sequence ?1Do you want to enter the restriction enzymes from/the keyboard or from a file ? (Answer K or F)
"Please enter the enzyme file name.
.enz5Enter the names for the enzymes and their recognition0sequences. Stop with empty recognition sequence.
\DRAWMAP\TEMP$$$$.ENZ
Enzyme name:
recog sequence:
NO MORE ENZYMES, PLEASE !:If you want to save this set on disk for later use, please2give it a filename. Otherwise press only <return>.%A file with this name already exists.
Do you want to overwrite it ?.
This is not a proper filename.
(Sorry, no drive names here.)
Please give a better one.:Shall we match the recognition sequences on both strands ?
Press <return> for 'yes'
\DRAWMAP\TEMP$$$$.SIT
******
Searching:
SITE SCANNING IS INTERRUPTED !
ENZYMES SCANNED.
Please press slash (/)...?Returning to the main menu...
noname.map-The following enzymes do not cut the plasmid:U
<At,<Ct(<Gt$<Tt <Nt
" / < A F j o t
" , 1 C H M _ d i
!.!3!8!Q!V![!t!y!~!
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$!$.$9$I$N$S$m$r$w$
%+%8%=%n%
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.=.d.
6D7k7
8"838@8E8R8^8k8
9'94999>9P9U9Z9l9y9~9
: :+:@:K:P:d:i:n:
;&;+;c;h;m;
<'<=<I<_<d<i<{<
=B=G=Y=^=c=p=
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@<@M@Z@e@j@o@}@
@^AcAmArA
B-B>BKBPBUB{B
C*C/C4CJCWC\CaCzC
D*D2D7D<DIDcDhDzD
E)E5EKEPEbEgElE~E
F"F/FBFGFLFYFdFzF
G(G5G:GLGQGVG
H H/H4HQHVH_HyH
I&I3IFIKIXImIxI
J-J2J7JIJNJSJeJjJoJ
K$K1K6KGKRKcKhKwK|K
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M&M1MAM[MeMuM
N'N4NBNGNLN
O@OdOiOxO
O9PMP\P{P
Q!Q&Q8Q=QBQ
Q#R.R3R8RaRpR
S"S+SFSLSfSrS}S
T"T-T\TbT
U U.U4UTU`UkUxU
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b#b3b=bBb\bfbkbvb{b
plasmid name: P <F1> -info <F2> -enzymes <F3> -gel <ESC> -back to the main menu U
< You are now in a section where you can easily calculate< what kind of fragments a restriction enzyme digest will< produce from your workfile plasmid. (The name of the< plasmid is shown highlighted at the bottom of the screen.)< You can use up to ten enzymes in a combined digestion.< These enzymes are matched against the names of the SITES< in the plasmid map. A match (which leads to a cut) will
be scored if:& 1) The type of the site is 'enzyme'.7 2) The name of the site contains any of the digesting( enzyme names given in this section.< The principle 2) means that the digesting enzyme 'Sal1'< will match agaist a site with the name 'Acc1 Sal1 Hinc2'.< It also means that the digesting enzyme 'R1' will match< against the site 'EcoR1'. To distinguish between 'R1' and5 'R1*' write 'R1 ' (i.e. include a blank character).< The principle also means that the spelling of the< digesting enzymes given here must be exactly similar to< the site names in the plasmid map. A list of all different< site names on your workfile map is given when you hit the< function key <F2>. You can review this list at any time.< The list shows highlighted those enzymes which matched/ against your latest set of digesting enzymes.U
- <ESC> - back to the restriction data mode
- page up and down
U
- <ESC> - back to the restriction data mode
- page up and down C Please stick to this spelling !
6 You can choose between entering the data either from 6 a file (F) or from the keyboard (K). In the latter 6 case you can store the set into a file. > Please provide a proper filename (with an optional pathname) ( for the data. The current directory is
\DRAWMAP. > Note: If you give a filename with no period (.), the name > will be extended with the extension .STD ' Free text format (max 20 characters). * Enter positive numerical values, please. = You can save your standard set for later use by giving it a = proper filename (with a path) by which you refer it later.
The current directory is !\DRAWMAP. = Note: If you give a filename with no period (.), the name = will be extended with the extension .STD 4 Answer 'Y' if you decide to destroy the old file 4 with this name. U
*.std
+Something wrong in your standard file (row U
O <F1> - info <ESC> - back to the gel ;Now you can change the size standard for the simulated gel.;Do you want to take the new standard from a file or load it)now from the keyboard ? (Answer K or F)
Please enter the file name.
( <return> for
.std<No such file found. Please give a name for an existing file.'Give below a heading for the digestion.?Now enter, one by one, the sizes in base pairs of the fragments;in your standard set. End by a <return> from an empty line.:If you want to save this set on disk for later use, please2give it a filename. Otherwise press only <return>.%A file with this name already exists.
Do you want to overwrite it ?
This is not a proper filename.
Please give a better one.U
ESC - back to digest more
- stretch the gel
F2 - new size standardU
\drawmap
Graphics error: U
W<Pu"
U
LPT1AIn this section you can check what kind of fragments a particularA(combined) enzymatic digestion will produce from your workfile
plasmid.CUse <F2> to see a list of the spelling for the enzymes on your map.
1Do you want to have the fragment lists printed ?
fragments only
$Be sure that your printer is ready !8Please enter the enzymes of your digestion separately on6different lines. End with <return> from an empty line.6Press <return> only after typing a name for an enzyme.
Try again.
No sites for these enzymes."fragments ends fragments
to U
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S8SESJSM <F1> - info <F2> - clone <ESC> - back to the main menu
\DRAWMAP
circular
linear
enzyme
marker
suppressed
active U
X<?uJ
5 H V ~
Save unsuccesful !
K free space on disk./Please switch onto a disk with more free space.
Press a key ...
error U
*.map
>
0 - 1uit the program
1 - Draw a *icture of the workfile plasmid
2 - Show ,estriction data from the workfile plasmid
3 - Get a new 'orkfile $ 4 - Prepare a workfile from
NA sequence
5 - 1dit the workfile
6 - 1ave the workfile
7 - 1hange the default drive and file directory
Batch > D R A W M A P M E N U > -------------------------- J
U
O <F1> - info <ESC> - back to the main menu
Batch - D R A W I N G M E N U- --------------------------; Please choose the plotter device from the list below
B -
batchU
Workfile not saved. Ok to exit?"Workfile not saved. Ok to proceed?
Draw= Choose the plotter from the above list by pressing a number.= If you want to draw all maps in the current directory, press
first B for batch.
Inform+Your workfile does not represent a plasmid.
<F1> - info: .map files
Note: workfile not saved"Enter filename (return for cancel)
This is an illegal filename.
This is a new file.
This is an existing file.4This is an existing file in the specified directory.7The specified directory does not contain this map file.
Please enter again.
\DRAWMAP
Search
Nothing to save !,Illegal filename - Please give a better one.2Be kind enough to provide with an unused filename.
Existing file. OK to overwrite?
backup.$$$
Saving
Drawmap version map file
lastmap.bak Enter new (drive and) directory.1 Choose from the above list by pressing a number 1 or a key corresponding to a highlighted letter U
<duh1
<eum1
+ 0 5 N S X r w |
% 8 B L Q g l u
!@!Q!\!a!w!
"4"9"G"v"{"
#1#f#k#
$($0$9$>$Q$V$[$o$y$
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+!,&,J,O,s,x,
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.+.4.9.Z._.m.
/$/./3/8/B/G/n/s/-File not suitable to be interpreted as a map.4The file you indicated on disk is not suitable to be1copied as your workfile and it will be abandoned.
S = /
press a key ...
\DRAWMAP
UNEXPECTED END OF FILE;U
Warning !
This program is version
but your map file
was written by the version
TRUEU
7 ] b l
Screen - circle only
Screen - full drawingU
\DRAWMAP
\OUTFILE
\DRAWMAP\ALL.ENZ
\DRAWMAP\L-PST.STD
not used
DRAWMAP.INI Warning !
This program is version
but your start file
was written for the version
press a key ...
Attention !-Default settings for colors etc will be used.%For customization, run DRAWMAP SETUP.U
A AMenu choices AHighlighted letter (hot key) AMenu choice in use ASubmenu choice in use ACommunication with the user ABox ASpecial key info AInfo line AWAIT prompt ASELECT prompt AFile list headers AFile list ANumber of files found U
A AHeadings and menu choice numbers AMenu choices AShort info text (also elsewhere in the program) ACommunication with the user AInfo line U
A ACommunication to the user AUser response AReminder for printer connection AResult of the digestion JInfo line AInfo line 2 APlasmid name U
A AFrame of the box AInfo text U
A AFrame (top) AFrame AFrame (bottom) AEnzymes AEnzymes (highlighted) ANumber of sites in the plasmid U
A ACommunication with the user AUser response AInfo line AFile list headers AFile list ANumber of files found U
A ACommunication with the user AUser response AHighlighted text ARecheck for pressing <ESC> AInfo line AFile list headers AFile list ANumber of files found U
AInfo line (choose these colors in section 4. !) A ANumber of sites in sequence (highlighted for cursor position) ANumber of sites in sequence bActive (highlighted for cursor position) bActive, but no sites (highlighted for cursor position) bInactive (highlighted for cursor position) bInactive, no sites (highlighted for cursor position) AActive AActive, but no sites AInactive AInactive, no sites AStatus line U
A AColor code (can be changed in section 4.1) kColor code (can be changed in section 4.1) EText AKey symbols AFrame U
A AHeadings ABoxes ABad data AComments or brief info AData AMost recent input of user AInfo line AWarning U
A ABox AText AKeys U
A AInfo line AHeadings and menu choices AMenu choice in use ACommunication with the user AError indicator AUser response U
@ @Chosen directory @ .map file list @Active file @Info line @No. of files indicator and general background U
Cursor at: U
L C O L O R C U S T O M I Z A T I O N
Cursor at: > arrows - to move around <F1> - change colors> <F2> - constant/chosen colors <ESC> - done U
2 arrows - move to the choice <RET> - choose
<ESC> - cancel
3<<u"
ESC - back to digest more
- stretch the gel
F2 - new size standardU
Lambda Pst1
pBR322 EcoR1
805
1159
1700
2139
2561
2840
4505
5080
14055
4363U
\drawmap
Graphics error: L
L C O L O R C U S T O M I Z A T I O N
; arrows - change colors <ESC> - done
#DEFAULT DIRECTORIES AND FILE NAMES:$Default directory for the map files:>
,Default file name for the DNA sequence file:'Default file name for the enzymes file:,Default file name for the DNA standard file:1 <RET> - move <ESC> - done
(.txt)