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>PFA0005w ATGGTGACGCAAAGTAGTGGTGGGGGTGCTGCTGGTAGTAGTGGTGAGGA AGATGCCAAACATGTATTGGATGAATTTGGGCAACAAGTGTACAATGAAA AAGTGGAAAAGTATGCTAATTCTAAAATATATAAAGAGGCGTTGAAAGGA GATTTGTCACAAGCATCAATTTTGAGCGAATTAGCTGGCACCTATAAACC ATGTGCCCTTGAATATGAATATTATAAGCATACTAATGGCGGTGGTAAGG GTAAAAGGTATCCGTGTACAGAGTTAGGTGAAAAAGTAGAACCACGTTTT TCGGATACACTTGGTGGTCAGTGTACTAACAAAAAAATAGAAGGTAATAA ATATATTAAAGGTAAGGATGTTGGTGCTTGTGCACCATACCGACGTCTAC ATCTATGTAGTCATAATTTGGAAAGTATACAAACAAATAATTATAATAGT GGTAATGCTAAACATAATTTATTGGTAGATGTGTGTATGGCAGCCAAATA CGAAGGGGACTCAATAAAAAACTATTATCCAAAGTATCAAAGAACATATC ...Sequences are expected to be represented in the standard IUB/IUPAC amino acid and nucleic acid codes, with these exceptions: lower-case letters are accepted and are mapped into upper-case; a single hyphen or dash can be used to represent a gap of indeterminate length; and in amino acid sequences, U and * are acceptable letters (see below). Before submitting a request, any numerical digits in the query sequence should either be removed or replaced by appropriate letter codes (e.g., N for unknown nucleic acid residue or X for unknown amino acid residue).
The nucleic acid codes supported are:
A --> adenosine M --> A C (amino) C --> cytidine S --> G C (strong) G --> guanine W --> A T (weak) T --> thymidine B --> G T C U --> uridine D --> G A T R --> G A (purine) H --> A C T Y --> T C (pyrimidine) V --> G C A K --> G T (keto) N --> A G C T (any) - gap of indeterminate length
Any of the following are acceptable formats as input:
Ensure that the sequences are properly formated as a FASTA file
Also, try replacing the end-of-line character at the end of the title (remove it and re-type it)