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: 8.400


Aligning:
Query:	3Q1Q_C:13-22
Target:	2AZX_C:513-522

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

	CAGUUGGUAG
	|* | |||*|
	CAAU-GGUAG

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



Alignment Score: 9.800


Aligning:
Query:	3Q1Q_C:13-22
Target:	2NR0_E:12-23

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

	C-AGUUGGUAG--
	  * |||||*|  
	GGAAUUGGUAGAC

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



Alignment Score: 11.000


Aligning:
Query:	3Q1Q_C:13-22
Target:	2ZM5_C:13-22

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

	CAGUUGGUAG
	|*|| |||*|
	CAGUCGGUAG

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



Alignment Score: 9.800


Aligning:
Query:	3Q1Q_C:13-22
Target:	2DLC_Y:512-523

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

	C-AGUUGGUA-G
	| *||||| * |
	CAAGUUGGGAAG

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



Alignment Score: 11.000


Aligning:
Query:	3Q1Q_C:13-22
Target:	1FIR_A:13-22

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

	CAGUUGGUAG
	|*|| |||*|
	CAGUCGGUAG

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



Alignment Score: 10.400


Aligning:
Query:	3Q1Q_C:13-22
Target:	3A2K_C:13-23

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

	CAGUUGGU-AG
	|*|||||| *|
	CAGUUGGUUAG

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