Locus 1597

Sequence ID	3L_DroMel_CAF1
Location	4,680,294 – 4,680,397
Length	103
Max. P	0.937933

overview

Window 4

Location	4,680,294 – 4,680,397
Length	103
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	97.41
Mean single sequence MFE	-21.50
Consensus MFE	-19.52
Energy contribution	-19.55
Covariance contribution	0.03
Combinations/Pair	1.04
Mean z-score	-1.55
Structure conservation index	0.91
SVM decision value	1.27
SVM RNA-class probability	0.937933
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4680294 103 + 23771897
CUUUUGAUUAGAAUUCUCUUUCUCCGCCAAUCACAAAUUGUUGGCAACGAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGAUUAUUGAAGGAC
((((..((.((((......))))............((((((((((((.(((((....))))).)))))((((..........)))))))))))))..)))).. ( -22.70)
>DroSec_CAF1 52345 103 + 1
CUUUUGAUUAGAAUUCUCUUUCUCCGCCAAUCACAAAUUGUUGGCUUCAAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGAUUAUUGAAGGAC
..........(((......)))(((((((((........))))))((((((((((..(((((...((.(......).))....))))).))))))))))))). ( -21.90)
>DroSim_CAF1 55411 103 + 1
CUUUUGAUUAGAAUUCUCUUUCUCCGCCAAUCACAAAUUGUUGGCUUCAAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGACUAUUGAAGGAC
..........(((......)))(((((((((........))))))........((((..(((.((((((..((....))...)))))).)))...))))))). ( -21.70)
>DroEre_CAF1 56314 103 + 1
CUUUUGAUUAGAAUUCUCUUUCUCCGCCAAUCACAAAUUGUUGGCUUCAAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGAUUAUUGAAGGAC
..........(((......)))(((((((((........))))))((((((((((..(((((...((.(......).))....))))).))))))))))))). ( -21.90)
>DroYak_CAF1 59069 103 + 1
CUUUUGAUUAGAAUUCUCUUUCUCCGCCAAUCACAAAUUGUUGGCUUCAAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGAUUAUUGAAGGAC
..........(((......)))(((((((((........))))))((((((((((..(((((...((.(......).))....))))).))))))))))))). ( -21.90)
>DroAna_CAF1 54813 103 + 1
GUUCUGAUUAGAAUUCUCUUUCUCCUCCAAUCACAAUUUGUUGGCUUCAAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGAUUAUUGAAGGAC
(((((((..((((......))))..))...(((....((((((((...(((((....)))))...)))((((..........)))))))))....)))))))) ( -18.90)
>consensus
CUUUUGAUUAGAAUUCUCUUUCUCCGCCAAUCACAAAUUGUUGGCUUCAAUAAUUCAUUGUUUUUGCCGCCGUCACUGCUUUUGGCAACGAUUAUUGAAGGAC
..........(((......)))(((((((((........))))))........((((..(((.((((((..((....))...)))))).)))...))))))). (-19.52 = -19.55 +   0.03)

alignment

secondary structure

dotplot

Window 5

Location	4,680,294 – 4,680,397
Length	103
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	97.41
Mean single sequence MFE	-22.64
Consensus MFE	-20.06
Energy contribution	-20.58
Covariance contribution	0.53
Combinations/Pair	1.03
Mean z-score	-1.46
Structure conservation index	0.89
SVM decision value	0.59
SVM RNA-class probability	0.791705
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4680294 103 - 23771897
GUCCUUCAAUAAUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUCGUUGCCAACAAUUUGUGAUUGGCGGAGAAAGAGAAUUCUAAUCAAAAG
............((.(((((((..(((.((..((((((.................))))))..))...)))..))))))).)).................... ( -20.43)
>DroSec_CAF1 52345 103 - 1
GUCCUUCAAUAAUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUUGAAGCCAACAAUUUGUGAUUGGCGGAGAAAGAGAAUUCUAAUCAAAAG
.(((((((((((((((((......((.((....)).)).....))))).)))))))))(((((((.....)).))))))))((...((....))..))..... ( -22.80)
>DroSim_CAF1 55411 103 - 1
GUCCUUCAAUAGUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUUGAAGCCAACAAUUUGUGAUUGGCGGAGAAAGAGAAUUCUAAUCAAAAG
.(((((((((((((((..(........)..)))))(.......).......)))))))(((((((.....)).))))))))((...((....))..))..... ( -23.50)
>DroEre_CAF1 56314 103 - 1
GUCCUUCAAUAAUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUUGAAGCCAACAAUUUGUGAUUGGCGGAGAAAGAGAAUUCUAAUCAAAAG
.(((((((((((((((((......((.((....)).)).....))))).)))))))))(((((((.....)).))))))))((...((....))..))..... ( -22.80)
>DroYak_CAF1 59069 103 - 1
GUCCUUCAAUAAUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUUGAAGCCAACAAUUUGUGAUUGGCGGAGAAAGAGAAUUCUAAUCAAAAG
.(((((((((((((((((......((.((....)).)).....))))).)))))))))(((((((.....)).))))))))((...((....))..))..... ( -22.80)
>DroAna_CAF1 54813 103 - 1
GUCCUUCAAUAAUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUUGAAGCCAACAAAUUGUGAUUGGAGGAGAAAGAGAAUUCUAAUCAGAAC
...(((((((((((((((......((.((....)).)).....))))).))))))))))........((.(((((((((...........))))))))).)). ( -23.50)
>consensus
GUCCUUCAAUAAUCGUUGCCAAAAGCAGUGACGGCGGCAAAAACAAUGAAUUAUUGAAGCCAACAAUUUGUGAUUGGCGGAGAAAGAGAAUUCUAAUCAAAAG
.(((((((((((((((((......((.((....)).)).....))))).)))))))))(((((((.....)).))))))))((...((....))..))..... (-20.06 = -20.58 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:34 2006