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: 10.600


Aligning:
Query:	2GDI_Y:19-21_38-47
Target:	4TZZ_F:37-47_69-71

iso	.......+*.*+....
edge	.......ws.hh....
struc	.......((.))....

	GUG.C--UGAGAAAUA
	 ||.   +* *+   |
	-UG.AUUAGCGACGGA

struc	.......((.))....
edge	.......ws.hh....
iso	.......+*.*+....



Alignment Score: 10.600


Aligning:
Query:	2GDI_Y:19-21_38-47
Target:	4TZZ_C:36-47_69-72

iso	.......+*.*+......
edge	.......ws.hh......
struc	.......((.))......

	GUG.C--UGAGAA--AUA
	 ||.   +* *+   || 
	AUG.AUUAGCGACGGAU-

struc	.......((.))......
edge	.......ws.hh......
iso	.......+*.*+......



Alignment Score: 26.000


Aligning:
Query:	2GDI_Y:19-21_38-47
Target:	2GDI_X:19-21_38-47

iso	.*...**.**.*..
edge	.W...ws.hh.W..
struc	.(...((.)).)..

	GUG.CUGAGAAAUA
	|*|.|**|**|*||
	GUG.CUGAGAAAUA

struc	.(...((.)).)..
edge	.W...ws.hh.W..
iso	.*...**.**.*..



Alignment Score: 32.800


Aligning:
Query:	2GDI_Y:19-21_38-47
Target:	2HOJ_A:19-21_38-47

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

iso	.*+...*.*+.*..
edge	.Wh...s.hs.W..
struc	.((...(.)).)..

	GUG.CUGAGAAAUA
	|*+.|+*|*+|*||
	GUG.CUGAGAAAUA

struc	.((...(.)).)..
edge	.Wh...s.hs.W..
iso	.*+...*.*+.*..

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



Alignment Score: 21.600


Aligning:
Query:	2GDI_Y:19-21_38-47
Target:	3D2V_A:10-13_26-36

iso	..+...**.**.+...
edge	..W...ws.hh.W...
struc	..(...((.)).)...

	G-UG.CUGAGAAA-UA
	| +|.|**|**|+ | 
	GGUG.CUGAGAAAGUC

struc	..(...((.)).)...
edge	..W...ws.hh.H...
iso	..+...**.**.+...