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.
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------


Alignment Score: 9.800


Aligning:
Query:	3U5H_5:2347-2349_1883-1888
Target:	1VX6_A:2640-2642_2151-2156

iso	.*......*.
edge	.s......h.
struc	.(......).

	UAU.AAUAAU
	|*|.|| |* 
	UAU.AAAAAA

struc	.(......).
edge	.s......h.
iso	.*......*.



Alignment Score: 10.400


Aligning:
Query:	3U5H_5:1883-1888_2347-2349
Target:	4A1B_1:1907-1912_2342-2344

iso	....*...*.
edge	....h...s.
struc	....(...).

	AAUAAU.UAU
	|| |*|.|*|
	AACAAU.UAU

struc	....(...).
edge	....h...s.
iso	....*...*.