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: 20.200


Aligning:
Query:	4QCN_A:312-314_374-377
Target:	1VX6_A:2716-2718_2943-2946

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

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

	CAG.UGGG
	 *|.|*|*
	UAG.UGGG

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

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



Alignment Score: 20.200


Aligning:
Query:	4QCN_A:312-314_374-377
Target:	2QBG_B:2081-2083_2236-2239

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

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

	CAG.UGGG
	 *|.|*|*
	UAG.UGGG

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

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



Alignment Score: 20.200


Aligning:
Query:	4QCN_A:312-314_374-377
Target:	4W21_5:3927-3929_4181-4184

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

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

	CAG.UGGG
	 *|.|*|*
	UAG.UGGG

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

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



Alignment Score: 14.400


Aligning:
Query:	4QCN_A:312-314_374-377
Target:	1VW3_A:1981-1983_2262-2265

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

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

	CAG.UGGG
	 + .|+|+
	UAA.UUGG

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

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



Alignment Score: 19.400


Aligning:
Query:	4QCN_A:374-377_312-314
Target:	1S72_0:2269-2272_2122-2124

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

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

	UGGG.CAG
	 *|*.|*|
	CGGG.CAG

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

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



Alignment Score: 20.200


Aligning:
Query:	4QCN_A:312-314_374-377
Target:	3U5H_5:2423-2425_2604-2607

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

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

	CAG.UGGG
	 *|.|*|*
	UAG.UGGG

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

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