Hi,
Could anyone help me for FASTA problem on GCG package?
Under is reported my session with Fasta program
======================== TO ============================================
FASTA does a Pearson and Lipman search for similarity between a
query sequence and any group of sequences. FASTA answers the
question, "What sequences in the database are similar to my sequence?"
The relationship between FASTA and WORDSEARCH has not been
characterized, but FASTA is faster and, for some searches, more
sensitive.
FASTA with what query sequence ? p.seq
Begin (* 1 *) ?
End (* 145 *) ?
Search for query in what sequence(s) (* GenEMBL:* *) ? em_fun:*
What word size (* 6 *) ?
List how many best scores and alignments (* 40 *) ?
What should I call the output file (* P.Fasta *) ?
1 Sequences 378 bp searched FUN:A00040
101 Sequences 143,453 bp searched FUN:ANACUD
201 Sequences 387,974 bp searched FUN:ANRRN5G2
301 Sequences 541,829 bp searched FUN:BGLJM2957
401 Sequences 692,327 bp searched FUN:CARGA2
501 Sequences 820,461 bp searched FUN:CFRGSS9B
601 Sequences 964,109 bp searched FUN:CMFAHR
701 Sequences 1,143,649 bp searched FUN:CTSRRNAB
801 Sequences 1,201,541 bp searched FUN:EARRA
901 Sequences 1,329,199 bp searched FUN:FJRRNG1
1,001 Sequences 1,413,149 bp searched FUN:HARNAITSH
1,101 Sequences 1,604,775 bp searched FUN:KLL41A
1,201 Sequences 1,759,558 bp searched FUN:LPRRLSAN
1,301 Sequences 1,856,944 bp searched FUN:MRRR25SB
1,401 Sequences 2,053,312 bp searched FUN:NCLEURSC
1,501 Sequences 2,223,779 bp searched FUN:NCSOD1
. . . . .
. . . . .
. . . . .
(Nucleotide) FASTA of: P.Seq from: 1 to: 145 April 6, 1994 15:02
TO: em_fun:* Sequences: 5,097 Symbols: 9,889,085 Word Size: 6
Score Init1 Initn
< 4 126 126:==================================================
8 0 0:
12 0 0:
16 0 0:
20 0 0:
24 556 556:==================================================
28 1093 1093:==================================================
32 2320 2320:==================================================
36 2626 2626:==================================================
40 1600 1600:==================================================
44 804 804:==================================================
48 524 517:==================================================
52 297 288:==================================================
56 137 126:==================================================
60 65 59:==============================---
64 32 31:================
68 9 9:=====
72 3 3:==
76 1 10:=++++
80 1 12:=+++++
84 0 3:++
88 0 4:++
92 0 2:+
96 0 0:
100 0 2:+
104 0 1:+
108 0 1:+
mean initn score: 34.2 (6.58)
mean init1 score: 34.2 (6.58)
The best scores are: init1 initn opt
*** Error: Cannot open file FUN:SCCHROMI
*** Error: Cannot open file FUN:SCCHRIII
*** Error: Cannot open file FUN:SCCIIORF
*** Error: Cannot open file FUN:SCIIL26O
*** Error: Cannot open file FUN:SCCHRIII
============================== FROM ====================
What is the cause of this error ?
Thanks in advance
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