Alignment represention:
-> The line labled 'iso' is the isostericity base-pair indication. A Star '*' represents the matched location in the seqeunce is a of part a matched isosteric base-pair.A plus symbol '+' represents the matched location is a part of matched non-isosteric base-pair.
-> The line labeled 'edge' is the interacting edges. 'W' is for Watson-Crick, 'H' is for Hoogsteen, and 'S' is for sugar edge.Upper case letters are for 'cis' orientation base-pairs while lower case letters are for 'trans' orientation base-pairs.
-> The line labeled 'struc' represents the base-pair locations. A pair of '(' and ')' represent the base-pair that was identified in the first stage,while '<' and '>' represent the base-pair that was identified in the second stage.
-> A dot in the sequence represents the breakage location of the original sequence due to presentation of multiple strands in the query motif.An '-' symbol represents a gap in the sequence.
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Alignment Score: 23.200


Aligning:
Query:	1VW3_A:293-300_277-285
Target:	4A1C_3:98-104_71-78

iso	.***.........*.**.
edge	.shh.........h.wh.
struc	.(((.........).)).

	AGAAAAUA.UAUGAGUAU
	 ***  | .  | *|** 
	GGAAG-UC.G-UUAGUAC

struc	.(((.........).)).
edge	.shh.........h.wh.
iso	.***.........*.**.



Alignment Score: 20.000


Aligning:
Query:	1VW3_A:293-300_277-285
Target:	2QBG_B:1742-1746_1712-1718

iso	.**+.........+..**.
edge	.shh.........h..wh.
struc	.(((.........)..)).

	AGAAAAUA.UAUGA-GUAU
	 **+|   .|   + |** 
	UGAAA---.U---AUGUAG

struc	.(((.........)..)).
edge	.shw.........w..wh.
iso	.**+.........+..**.