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: 18.200


Aligning:
Query:	4A1B_1:2387-2389_2974-2975
Target:	1S72_0:2091-2093_2652-2653

iso	.**...
edge	.SH...
struc	.()...

iso	.*..*.
edge	.W..W.
struc	.(..).

	CGG.UA
	 **.*|
	GGG.UA

struc	.(..).
edge	.W..W.
iso	.*..*.

struc	.()...
edge	.SH...
iso	.**...



Alignment Score: 16.400


Aligning:
Query:	4A1B_1:2974-2975_2387-2389
Target:	4IOA_X:770-771_751-753

iso	....**
edge	....SH
struc	....()

iso	*...*.
edge	W...W.
struc	(...).

	UA.CGG
	* . **
	UC.GGU

struc	(...).
edge	W...W.
iso	*...*.

struc	....()
edge	....SH
iso	....**



Alignment Score: 16.400


Aligning:
Query:	4A1B_1:2974-2975_2387-2389
Target:	1VW3_A:648-649_629-631

iso	....**
edge	....SH
struc	....()

iso	*...*.
edge	W...W.
struc	(...).

	UA.CGG
	* . **
	UC.GGU

struc	(...).
edge	W...W.
iso	*...*.

struc	....()
edge	....SH
iso	....**



Alignment Score: 11.800


Aligning:
Query:	4A1B_1:2974-2975_2387-2389
Target:	2QBZ_X:150-151_33-35

iso	....**
edge	....SH
struc	....()

iso	+...+.
edge	W...W.
struc	(...).

	UA.CGG
	+ .|++
	UG.CUC

struc	(...).
edge	W...W.
iso	+...+.

struc	....()
edge	....SH
iso	....**



Alignment Score: 19.000


Aligning:
Query:	4A1B_1:2974-2975_2387-2389
Target:	1VX6_A:3345-3346_2685-2687

iso	....**
edge	....SH
struc	....()

iso	*...*.
edge	W...W.
struc	(...).

	UA.CGG
	*|.|**
	UA.CGG

struc	(...).
edge	W...W.
iso	*...*.

struc	....()
edge	....SH
iso	....**