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: 16.400


Aligning:
Query:	1FJG_A:689-698
Target:	4BPP_A:878-887

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

	CGGUGAAAUG
	 |**|*|*| 
	AGGUGAAAUU

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



Alignment Score: 13.600


Aligning:
Query:	1FJG_A:689-698
Target:	1U9S_A:181-189

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

	CGGUGAAAUG
	 |** * *  
	-GGUAAGAGC

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



Alignment Score: 11.200


Aligning:
Query:	1FJG_A:689-698
Target:	2QBG_B:1092-1099

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

	CGGUGAAAUG
	| ** * * |
	C-GUAAUA-G

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



Alignment Score: 15.000


Aligning:
Query:	1FJG_A:689-698
Target:	4QCN_A:759-766

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

	CGGUGAAAUG
	 |**|* *  
	-GGUGAGAC-

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



Alignment Score: 13.600


Aligning:
Query:	1FJG_A:689-698
Target:	1S72_0:1196-1203

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

	CGGUGAAAUG
	| ** * * |
	C-GUAACA-G

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



Alignment Score: 16.400


Aligning:
Query:	1FJG_A:689-698
Target:	3J7A_A:969-978

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

	CGGUGAAAUG
	 |**|*|*| 
	AGGUGAAAUU

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



Alignment Score: 26.000


Aligning:
Query:	1FJG_A:689-698
Target:	2AW7_A:689-698

iso	.***.*.**.
edge	.sss.h.hh.
struc	.(((.).)).

	CGGUGAAAUG
	|***|*|**|
	CGGUGAAAUG

struc	.(((.).)).
edge	.sss.h.hh.
iso	.***.*.**.



Alignment Score: 16.400


Aligning:
Query:	1FJG_A:689-698
Target:	3U5F_6:900-909

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

	CGGUGAAAUG
	 |**|*|*| 
	AGGUGAAAUU

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



Alignment Score: 13.600


Aligning:
Query:	1FJG_A:689-698
Target:	3U5H_5:1267-1274

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

	CGGUGAAAUG
	  ** * *  
	U-GUAACAA-

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