This document outlines a study that will retrieve DNA sequences from GenBank, align the sequences using tools like ClustalW, and identify software that can convert the alignments to Microsoft Word format. It will compare the accuracy of different sequence alignment tools and construct a phylogenetic tree. It then describes CEDIT and SNUFER software. CEDIT uses Microsoft Word's color formatting to identify conserved DNA sequences across an alignment. SNUFER automatically generates tables of single nucleotide polymorphisms from a ClustalW alignment and can export the alignment or table to Word, Excel, or text files. The document demonstrates using SNUFER to load sequences, view an alignment, export it to Word, and view the aligned sequences in Word.

6. AIM & SCOPE OF THE STUDY
Sequence retrieval from Genbank
Sequences are converted in to FASTA format
Sequence are aligned using appropriate tools
Identifying the tool which is used to convert
the sequence in to Microsoft word document
Comparison of accuracy in sequence
alignment
Construction of Phylogenic tree

7. Microsoft Word
CEDIT
SNUFER

8. CEDIT: a C interface and macro facility for protein
sequence alignment editing in colour with Microsoft
Word
CEDIT uses the ability of MS-Word 5.0 to display letters with
the desired color to easily identify conservative homologies
across the sequences.
A glossary file with useful macros for the sequence editing is
provided, along with several utilities programs for error
checking, estimating sequence similarities and homology
significance.
CEDIT has a menu interface and a context sensitive help.

9. SNUFER
It is software for the automatic localization and generation of tables used for
the presentation of single nucleotide polymorphisms (SNPs).
 A multiple sequence alignment is generated using ClustalW ran inside
SNUFER using an input of a FASTA file containing the sequences to be
analyzed. The ClustalW output file is then used to generate a table which
displays the SNPs detected in the aligned sequences and their degree of
similarity. This table can be exported to Microsoft Word, Microsoft Excel or as
a single text file, permitting further editing for publication.
The software was written using Delphi 7 for programming and FireBird 2.0
for sequence database management.
It is freely available for non-commercial use and can be downloaded from the
http://www.heranza.com.br/bioinformatica2.htm.

10. ORGANISM 1: Channa orientalis
ORGANISM 2: Garra barreimiae
ORGANISM 3: Neolissochilus hexagonolepis
ORGANISM 4: Puntius denisonii
ORGANISM 5: Puntius filamentosus
ORGANISM 6: Rasbora daniconius

12. Open Snufer and load the selected sequence

13. The aligned sequence us shown below in another window

14. The sequences are transferred to Microsoft Word by using the “EXPORT TO WORD” command

15. The transported sequences are visualized in the Microsoft word

16. CONCLUSI
ON
Thus it extremely deliberately confers that, the
sequence alignment using Microsoft word is possible
by using SNUFER. It is software for the automatic
localization, generation of tables used for the
presentation of single nucleotide polymorphisms
(SNPs) and exporting the sequence alignment to
MICROSOFT WORD, EXEL..