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: 8.800


Aligning:
Query:	4MGN_D:13-21
Target:	1H4S_T:13-22

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

	CAGU--GGUAG
	|||   |**||
	CAGCCCGGUAG

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



Alignment Score: 7.600


Aligning:
Query:	4MGN_D:13-21
Target:	3AM1_B:18-23

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

	CAGUGGUAG
	   ||**| 
	--UUGGUA-

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



Alignment Score: 5.200


Aligning:
Query:	4MGN_D:13-21
Target:	3ICQ_E:13-22

iso	......++..
edge	......SH..
struc	......()..

	CAGU-GGUAG
	|||| |++||
	CAGUUGGGAG

struc	......()..
edge	......sh..
iso	......++..



Alignment Score: 4.400


Aligning:
Query:	4MGN_D:13-21
Target:	3WFS_A:11-24

iso	........++....
edge	........SH....
struc	........()....

	C--AGU-GGUAG--
	|  ||| |++||  
	CUCAGUUGGUAGAG

struc	........()....
edge	........sh....
iso	........++....



Alignment Score: 7.600


Aligning:
Query:	4MGN_D:13-21
Target:	1QRS_B:12-23

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

	CA-GUGGUA-G
	|| | |**| |
	CAAGCGGUAAG

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