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: 9.600


Aligning:
Query:	1H3E_B:12-23
Target:	2CV1_D:513-522

iso	..*+....+.*..
edge	..Ws....w.S..
struc	..((....).)..

	CGAGCGGCCAAAG
	  *+||| + * |
	U-AGCGG-UUA-G

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



Alignment Score: 20.400


Aligning:
Query:	1H3E_B:12-23
Target:	1WZ2_D:912-926

iso	.*+*......*.+*.
edge	.sWs......w.Sh.
struc	.(((......).)).

	CGAGC--GGCCAAAG
	|*+*|  || *|+*|
	CGAGCCUGGUCAAAG

struc	.(((......).)).
edge	.sws......w.sh.
iso	.*+*......*.+*.



Alignment Score: 15.400


Aligning:
Query:	1H3E_B:12-23
Target:	2DER_D:13-22

iso	..**....*.*..
edge	..Ws....w.S..
struc	..((....).)..

	CGAGCGGCCAAAG
	  ** |||* * |
	U-AGAGGCCCA-G

struc	..((....).)..
edge	..Ws....w.S..
iso	..**....*.*..



Alignment Score: 20.400


Aligning:
Query:	1H3E_B:12-23
Target:	2ZZM_B:12-23

iso	.*+*......*.+*.
edge	.sWs......w.Sh.
struc	.(((......).)).

	CGAGC--GGCCAAAG
	|*+*|  |||*|+*|
	CAAGCCUGGCCAAAG

struc	.(((......).)).
edge	.sws......w.sh.
iso	.*+*......*.+*.



Alignment Score: 11.600


Aligning:
Query:	1H3E_B:12-23
Target:	1SER_T:12-23

iso	.*+.......+*.
edge	.sW.......Sh.
struc	.((.......)).

	CGAGCGGCCAAAG
	|*+| |||  +*|
	CGAGUGGCUGAAG

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