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.
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Alignment Score: 28.000


Aligning:
Query:	4FRG_B:39-43_54-55_69-73_18-25
Target:	4FRN_A:67-71_18-25_39-53

iso	.+..................+........................
edge	.W..................W........................
struc	.(..................)........................

	CCAGA.UA.AAUGC.GGAAAG-------UG---------------
	 +   .  .  |  .     +       ||               
	AA---.--.--U--.-----GCGGAAAGUGCCACAUUACUUGAUA

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