The editor allows you to view and modify the sequences of 'marked
species' (see ´Glossary´) and 'SAI' (sequence associated
information) data stored in the data base, and to insert
new data. Potential secondary structure is automatically checked
and the information can be displayed with the primary structure.
Protection levels can be assigned to the sequences and 'SAI'
entries individually.
The editor permanently communicates with the database and
other ARB tools. Every change made by the editor is immediately
exported to the database. All sequence changes made by other
ARB tools are exported to the editor every 5 seconds.
Multiple editors can be used synchronously.
Display:
The first column of the editing area of the 'ARB_EDIT'
window shows the protection levels. The names of
sequences (> name<) and SAI entries (# name#) are listed
in column 2.
@@@ sequences
Cursor:
The cursor can be moved using the mouse or the arrow
keys. The current cursor positions with respect to the
alignment and the E. coli sequence (there has to be an
'SAI' entry: ECOLI) are indicated after the 'abs-pos'
and 'ecoli-pos' prompts in the upper part of the
'ARB_EDIT' window, respectively.
Moving entries:
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To move an individual entry, position the cursor on the
name, keep the left mouse button pressed, move the entry
to the desired position, and release the button.
-
Any entry can be fixed (keeps its position while
scrolling) at the top or bottom of the editing area by
moving it beyond this area.
Editing:
-
Protection:
To perform editing, the protection level of the
particular entry has to be set to 0 (select protection
from the 'EDIT' menu of the 'ARB_EDIT' window) or the
protection has to be set globally (press the
'Protection' button in the upper part of the 'ARB_EDIT'
window) to a level equal to or higher than that assigned to
the entry.
-
Modes:
-
There are three editing modes which can be selected
by pressing F1 or the <align/insert/replace> button
in the upper part of the 'ARB_EDIT' window.
-
Nucleotide (amino acid) and gap symbols can be assigned
to any of the letter and symbol keys by using the 'Key
Mapping' facility ('EDIT' menu).
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Typing can be done in both directions. Select 5'>3' or
3'>5' by pressing the <orientation> button.
-
Replace:
Any character right (5'>3') or left (3'>5') to
the cursor is replaced by nucleotide (aminoacid)
and gap symbols. Characters are deleted ('Del'
and 'Backspace' keys) right (5'>3') or left
(3'>5') of the cursor
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Insert:
Nucleotide (amino acid) and gap symbols are
inserted or deleted ('Del' and 'Backspace'
keys) right (5'>3') or left (3'>5') of the
cursor.
-
Align + Sequence check:
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Only gap symbols are inserted or deleted ('Del'
and 'Backspace' keys) right (5'>3') or left
(3'>5') of the cursor.
-
Sequence check is performed by typing nucleotide
(aminoacid) symbols. Discrepancies between typed
and existing symbols are indicated by beeping.
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@@@ Zahlen vervielfachen die Eingabe
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Moving nucleotide (amino acid) symbols:
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