Locus 7213

Sequence ID	3L_DroMel_CAF1
Location	19,354,635 – 19,354,755
Length	120
Max. P	0.962390

overview

Window 5

Location	19,354,635 – 19,354,755
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.89
Mean single sequence MFE	-42.89
Consensus MFE	-40.20
Energy contribution	-41.32
Covariance contribution	1.12
Combinations/Pair	1.03
Mean z-score	-1.94
Structure conservation index	0.94
SVM decision value	1.30
SVM RNA-class probability	0.939842
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19354635 120 + 23771897
CUUCCGCCUCUGCCAGUUCAUCUGGACCAGUGCCUCCAGAGGAUCAGAAUCCUAAGGCGUCCCAACAGGCGCAAGGUGGAGCAACUGCGCCUGCGCGUCGAGAUGAAUUUUUGCAAAACG
..........(((.(((((((((.(((....((((....(((((....))))).))))..........(((((.((((.((...)).)))))))))))).)))))))))...)))..... ( -43.90)
>DroSec_CAF1 4734 120 + 1
CUUCCGCCUCUGCCAGUUCAUCUGGACAAGUGCCUCCAGAGGAUCAGAAUCCUAAGGCGUCCCAACAGGCGCAAUGUGGAGCAAUUGCGCCUGCGCGUCGAGAUGAAUUUUUGCAAAACG
..........(((.(((((((((.(((....((((....(((((....))))).)))).......((((((((((........))))))))))...))).)))))))))...)))..... ( -46.40)
>DroSim_CAF1 4775 120 + 1
CUUCCGCCUCUGCCAGUUCAUCUGGACAAGUGCCUCCAGAGGAUCAGAAUCCUAAGGCGUCCCAGCAGGCGCAAUGUGGAGCAAUUGCGCCUGCGCGUCGAGAUGAAUUUUUGCAAAACG
..........(((.(((((((((.(((....((((....(((((....))))).))))......(((((((((((........)))))))))))..))).)))))))))...)))..... ( -50.80)
>DroYak_CAF1 8431 120 + 1
CUUCCGCCUCUGCCAGAUCACUUGGACCAGUGCCUCCAGAGGAUUAGAAUCCUAAGGCGUCCCAACAAGCGCAAGGUCGAGGAAUUGCGCAUGCGCGUCGAAAUGAAUUUUUGCAAAAUG
((((.((((.(((..........((((....((((....(((((....))))).))))))))........))))))).))))....(((....)))(.(((((.....))))))...... ( -30.47)
>consensus
CUUCCGCCUCUGCCAGUUCAUCUGGACAAGUGCCUCCAGAGGAUCAGAAUCCUAAGGCGUCCCAACAGGCGCAAGGUGGAGCAAUUGCGCCUGCGCGUCGAGAUGAAUUUUUGCAAAACG
..........(((.(((((((((.(((....((((....(((((....))))).)))).......((((((((((........))))))))))...))).)))))))))...)))..... (-40.20 = -41.32 +   1.12)

alignment

secondary structure

dotplot

Window 6

Location	19,354,635 – 19,354,755
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.89
Mean single sequence MFE	-45.53
Consensus MFE	-44.61
Energy contribution	-44.92
Covariance contribution	0.31
Combinations/Pair	1.10
Mean z-score	-1.94
Structure conservation index	0.98
SVM decision value	1.54
SVM RNA-class probability	0.962390
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19354635 120 - 23771897
CGUUUUGCAAAAAUUCAUCUCGACGCGCAGGCGCAGUUGCUCCACCUUGCGCCUGUUGGGACGCCUUAGGAUUCUGAUCCUCUGGAGGCACUGGUCCAGAUGAACUGGCAGAGGCGGAAG
((((((((...(.(((((((.(((..((((((((((..........))))))))))......((((((((((....)))))...)))))....))).))))))).).))))).))).... ( -46.40)
>DroSec_CAF1 4734 120 - 1
CGUUUUGCAAAAAUUCAUCUCGACGCGCAGGCGCAAUUGCUCCACAUUGCGCCUGUUGGGACGCCUUAGGAUUCUGAUCCUCUGGAGGCACUUGUCCAGAUGAACUGGCAGAGGCGGAAG
((((((((...(.(((((((.(((..(((((((((((........)))))))))))......((((((((((....)))))...)))))....))).))))))).).))))).))).... ( -48.50)
>DroSim_CAF1 4775 120 - 1
CGUUUUGCAAAAAUUCAUCUCGACGCGCAGGCGCAAUUGCUCCACAUUGCGCCUGCUGGGACGCCUUAGGAUUCUGAUCCUCUGGAGGCACUUGUCCAGAUGAACUGGCAGAGGCGGAAG
((((((((...(.(((((((.(((..(((((((((((........)))))))))))......((((((((((....)))))...)))))....))).))))))).).))))).))).... ( -51.00)
>DroYak_CAF1 8431 120 - 1
CAUUUUGCAAAAAUUCAUUUCGACGCGCAUGCGCAAUUCCUCGACCUUGCGCUUGUUGGGACGCCUUAGGAUUCUAAUCCUCUGGAGGCACUGGUCCAAGUGAUCUGGCAGAGGCGGAAG
.................(((((..(((....)))....((((..((...(((((((..(...((((((((((....)))))...))))).)..)..))))))....))..))))))))). ( -36.20)
>consensus
CGUUUUGCAAAAAUUCAUCUCGACGCGCAGGCGCAAUUGCUCCACAUUGCGCCUGUUGGGACGCCUUAGGAUUCUGAUCCUCUGGAGGCACUGGUCCAGAUGAACUGGCAGAGGCGGAAG
((((((((...(.(((((((.(((..(((((((((((........)))))))))))......((((((((((....)))))...)))))....))).))))))).).))))).))).... (-44.61 = -44.92 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:02 2006