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: 13.200


Aligning:
Query:	3J7Y_A:2649-2657_2470-2486
Target:	4QK8_A:31-40_89-94

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

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

	UCAGCUG---UC.GGAACUCGGCAAAUCUU
	 | |||    * . *|*      |      
	-C-GCUUUUUGG.CGAC------AG-----

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

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



Alignment Score: 33.400


Aligning:
Query:	3J7Y_A:2470-2486_2649-2657
Target:	4V19_A:799-815_980-987

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

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

iso	..*.....*.....+.......+**...
edge	..h.....W.....W.......SWw...
struc	..(.....(.....(.......)))...

	GGAACUCGGCAAA-UCUU.UCAGCUGUC
	||+|||||+||+| +| |.|  +++|||
	GGAACUCGGCAAACACAU.U--ACUGUC

struc	..(.....(.....(.......)))...
edge	..h.....W.....s.......sWw...
iso	..*.....*.....+.......+**...

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

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



Alignment Score: 17.600


Aligning:
Query:	3J7Y_A:2649-2657_2470-2486
Target:	1S72_0:260-266_245-249

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

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

	UCAGCUGUC.GGAACUCGGCAAAUCUU
	 ||  ||* . *|*   |         
	-CAA-UGUG.CGAA---G---------

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

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



Alignment Score: 14.200


Aligning:
Query:	3J7Y_A:2649-2657_2470-2486
Target:	4QLM_A:27-40_91-101

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

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

	U----CAGC--UGUC.GGAACUCGGCAAAUCUU
	     |||   | * . * *    || || |  
	GGACCCAGAAAU-GG.CGUC---AGCUAA-C--

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

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