staden-lg/help/nip_menu

-1 0 22 2 T General
-1 0 22 2 X General
-2 0 51 2 T Screen control
-2 0 72 2 X Screen
-3 0 118 2 T Statistical analysis of content
-3 0 143 2 X Statistics
-4 0 180 2 T Structures and repeats
-4 0 205 2 X Structures
-5 0 242 2 T Translation and codons
-5 0 242 2 X Translation and codons
-6 0 279 2 T Gene search by content
-6 0 279 2 X Gene search by content
-7 0 309 2 T General signals
-7 0 309 2 X General signals
-8 0 340 2 T Specific signals
-8 0 340 2 X Specific signals
0 -1 359 16 T NIP
0 -1 359 16 X NIP
1 0 1155 7 T Help
1 0 1155 7 X Help
2 0 1469 3 T Quit
2 0 1469 3 X Quit
3 1 1543 220 T Read a new sequence
3 1 1543 220 X Read a new sequence
4 1 11372 15 T Define active region
4 1 11372 15 X Define active region
5 1 12100 24 T List a sequence
5 1 12100 24 X List a sequence
6 1 13103 6 T List a text file.
6 1 13103 6 X List a text file.
7 1 13300 12 T Direct output to disk
7 1 13300 12 X Direct output to disk
8 1 13785 10 T Write active region to disk
8 1 13785 10 X Write active region to disk
9 1 14128 31 T Edit the sequence
9 1 14128 31 X Edit the sequence
10 2 15970 3 T Clear graphics
10 2 15970 3 X Clear graphics
11 2 16036 3 T Clear text
11 2 16036 3 X Clear text
12 2 16101 12 T Draw a ruler
12 2 16101 12 X Draw a ruler
13 2 16833 13 T Use crosshair
13 2 16833 13 X Use crosshair
14 2 17443 35 T Reposition plots
14 2 17443 35 X Reposition plots
15 2 19598 28 T Label a diagram
15 2 19598 28 X Label a diagram
16 2 20703 34 T Display a map
16 2 20703 34 X Display a map
17 1 22073 599 T Search for restriction enzymes
17 1 22073 599 X Search for restriction enzymes
18 7 46675 105 T Compare a short sequence
18 1 46675 105 T Compare a short sequence
18 7 46675 105 X Compare a short sequence
18 1 46675 105 X Compare a short sequence
19 7 49650 106 T Compare a short sequence using a score matrix
19 7 49650 106 X Compare a short sequence using a score matrix
20 7 53349 230 T Search for a motif using a weight matrix
20 7 53349 230 X Search for a motif using a weight matrix
21 3 63267 4 T Count base composition
21 3 63267 4 X Count base composition
22 3 63440 14 T Count dinucleotide frequencies
22 3 63440 14 X Count dinucleotide frequencies
23 5 64100 179 T Count codons and amino acids
23 3 64100 179 T Count codons and amino acids
23 5 64100 179 X Count codons and amino acids
23 3 64100 179 X Count codons and amino acids
24 3 72137 57 T Plot base composition
24 3 72137 57 X Plot base composition
25 3 73213 23 T Plot local deviations in base composition
25 3 73213 23 X Plot local deviations in base composition
26 3 74495 23 T Plot local deviations from dinucleotide composition
26 3 74495 23 X Plot local deviations from dinucleotide composition
27 3 75793 23 T Plot local deviations from trinucleotide composition
27 3 75793 23 X Plot local deviations from trinucleotide composition
28 5 77065 18 T Calculate codon constraint
28 5 77065 18 X Calculate codon constraint
59 3 77869 12 T Plot negentropy
59 3 77869 12 X Plot negentropy
30 4 78454 74 T Search for hairpin loops
30 4 78454 74 X Search for hairpin loops
31 4 80321 23 T Search for long range inverted repeats
31 4 80321 23 X Search for long range inverted repeats
32 4 81157 37 T Search for repeats
32 4 81157 37 X Search for repeats
33 4 82467 12 T Search for z dna (total ry, yr)
33 4 82467 12 X Search for z dna (total ry, yr)
34 4 82984 12 T Search for z dna (runs of ry, yr)
34 4 82984 12 X Search for z dna (runs of ry, yr)
35 4 83623 15 T Search for z dna (best phased value)
35 4 83623 15 X Search for z dna (best phased value)
36 4 84350 92 T Local similarity or complementarity search
36 4 84350 92 X Local similarity or complementarity search
37 5 87778 39 T Set genetic code
37 5 87778 39 X Set genetic code
38 4 89050 74 T Examine repeats
38 3 89050 74 T Examine repeats
39 5 91670 286 T Translate and list in upto six phases
39 5 91670 286 X Translate and list in upto six phases
40 5 103780 134 T Translate and write the protein sequence to disk
40 5 103780 134 X Translate and write the protein sequence to disk
41 5 108198 71 T Calculate and write codon table to disk
41 5 108198 71 X Calculate and write codon table to disk
42 6 111525 132 T Codon usage method
42 6 111525 132 X Codon usage method
43 6 118508 182 T Positional base preference method.
43 6 118508 182 X Positional base preference method.
44 6 127924 39 T Uneven positional base frequencies.
44 6 127924 39 X Uneven positional base frequencies.
45 6 130287 33 T Codon improbability on base composition
45 6 130287 33 X Codon improbability on base composition
46 6 132146 28 T Codon improbability on amino acid composition
46 6 132146 28 X Codon improbability on amino acid composition
47 6 133744 14 T Shepherd RNY preference method
47 6 133744 14 X Shepherd RNY preference method
48 6 134410 30 T Ficketts method
48 6 134410 30 X Ficketts method
49 6 136094 139 T tRNA gene search.
49 6 136094 139 X tRNA gene search.
50 7 141894 4 T Plot start codons
50 7 141894 4 X Plot start codons
51 7 142027 4 T Plot stop codons
51 7 142027 4 X Plot stop codons
52 7 142188 4 T Plot stop codons on the complementary strand
52 7 142188 4 X Plot stop codons on the complementary strand
53 7 142365 4 T Plot stop codons on both strands
53 7 142365 4 X Plot stop codons on both strands
54 5 142536 45 T Search for longest open reading frames
54 5 142536 45 X Search for longest open reading frames
55 8 144437 67 T Search for E. coli promoter (general)
55 8 144437 67 X Search for E. coli promoter (general)
56 8 148004 4 T Search for E. coli promoter (general) strand
56 8 148004 4 X Search for E. coli promoter (general) strand
57 8 148210 4 T Search for E. coli promoter sequences. (-35 and -10)
57 8 148210 4 X Search for E. coli promoter sequences. (-35 and -10)
58 8 148405 44 T Search for procaryotic ribosome binding sites
58 8 148405 44 X Search for procaryotic ribosome binding sites
29 1 150862 4 T Reverse and complement the sequence
29 1 150862 4 X Reverse and complement the sequence
60 7 151001 142 T Search using a dinucleotide weight matrix
60 7 151001 142 X Search using a dinucleotide weight matrix
61 8 157292 31 T Search for eukaryotic ribosome binding sites
61 8 157292 31 X Search for eukaryotic ribosome binding sites
62 8 158730 56 T Search for splice junctions
62 8 158730 56 X Search for splice junctions
63 7 162089 7 T Search using a weight matrix (complementary)
63 7 162089 7 X Search using a weight matrix (complementary)
64 3 162471 36 T Plot observed-expected word frequencies
64 3 162471 36 X Plot observed-expected word frequencies
65 9 164175 5 T Search for polya sites
65 9 164175 5 X Search for polya sites
66 1 164369 4 T Interconvert t and u
66 1 164369 4 X Interconvert t and u
67 7 164520 797 T Search for patterns of motifs
67 7 164520 797 X Search for patterns of motifs