Alu Sequence Database (last update 10/13/88 - D.K.) In addition to this documentation file, alu.doc, two data files are available: alu.js and alu-js.seq. The file alu.js contains aligned Alu sequences as explained in the note below. The file alu-js.seq contains the raw sequence data in IntelliGenetics format. Alignment gaps have been removed in the alu-js.seq file, and, when multiple sequences occur in the same LOCUS name, e.g., HUMTPA, they have been renamed HUMTPA-2, HUMTPA-3, etc., to facilitate their use with the IG software on BIONET. The following note is from the authors. Dr. Jurka, formerly of the MBCRR, is currently the BIONET Scientist at the BIONET Resource. ---------------------------------------------------------------------September 1988 Dear Colleague, These are Alu sequences used in study by Jerzy Jurka (Yurek Yurka) and Temple Smith, published in Proc. Natl. Acad. Sci. USA 85: 4775-4778 (1988). The sequences have been aligned by hand using sequence editor - MASE (Faulkner, D.V. and Jurka, J. TIBS 13: 321-322, 1988). The enclosed file is in the aligned output format useful for 'by eye' analysis. If you need MASE-input version of this file, please contact jurka@bionet-20.arpa. All non-profit researchers can obtain MASE software free of charge from Susan Russo (617) 732-3746. Address: MBCRR, J-815, Dana-Farber Cancer Institute, 44 Binney Street, Boston MA, 02115. The sequence-types are the following: 1- Consensus Alu (equivalent to Alu-S); 2-33 Alu-J; 34-102 branch 'a' of Alu-S (Alu-a), which most likely consists of 2 separate branches tentatively called Alu-d and Alu-e (see the paper); 103-113 Alu-c and 114-125 Alu-b. Yours sincerely, Jerzy Jurka Temple Smith