Locus 5282

Sequence ID 3L_DroMel_CAF1
Location 14,583,241 – 14,583,349
Length 108
Max. P 0.997360
window8354 window8355

overview

Window 4

Location 14,583,241 – 14,583,349
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.35
Mean single sequence MFE -31.58
Consensus MFE -28.05
Energy contribution -28.24
Covariance contribution 0.19
Combinations/Pair 1.03
Mean z-score -1.49
Structure conservation index 0.89
SVM decision value 0.70
SVM RNA-class probability 0.826465
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14583241 108 + 23771897
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACGUUGGAAAAGUGAGAAGCGCAUAGAACAGCGCACGCGUCGCGCUGAGAAG-------CGAUCUCAUG-----AUGAGAUGAGGA
......((((...(((((...((((((((((.((...((....))((.....)))).)))))))))).)))))))))(((....))-------)..((((((.-----.....)))))). ( -31.20)
>DroSec_CAF1 57911 108 + 1
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACGUUGGAAAAGUGAGAAGCGCAUAGAACGGCGCACGCGUCGCGCUGAGAAG-------CGAUCUCAUG-----AUGAGAUGAGGA
......((((...(((((...((((((((((.((...((....))((.....)))).)))))))))).)))))))))(((....))-------)..((((((.-----.....)))))). ( -30.40)
>DroSim_CAF1 59887 108 + 1
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACGUUGGAAAAGUGAGAAGCGCAUAGAACGGCGCACGCGUCGCGCUGAGAAG-------CGAUCUCAUG-----AUGAGAUGAGGA
......((((...(((((...((((((((((.((...((....))((.....)))).)))))))))).)))))))))(((....))-------)..((((((.-----.....)))))). ( -30.40)
>DroEre_CAF1 57999 108 + 1
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACAUUGGAAAAGUGAGAAGCGCAUAGAACGGCGCACGCGUCGCGCUGAGAAG-------CGAUCUCAUG-----AUGAGAUGAGGA
......((((...((((((((..((.((((((.....)))))).))..))).((((........)))))))))))))(((....))-------)..((((((.-----.....)))))). ( -30.60)
>DroYak_CAF1 59790 113 + 1
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACGUUGGAAAAGUGAGAAGCGCAUAGAACGGCGCACGCGUCGCGCUGAGAAG-------CGAUCUCAUGAUCUGAUGAGAUGAGGA
......((((...(((((...((((((((((.((...((....))((.....)))).)))))))))).)))))))))(((....))-------).(((((((......)))))))..... ( -32.40)
>DroAna_CAF1 54078 115 + 1
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACGCUGGAAAAGUGAGAAGUGCCAAGAACGGCGCACGCGUCGAGCUGAGAAGUGAUUCGCGAUCUCAUG-----AUGAGAUGAGGA
......(((((((.((((((..........))))))(((.((...(((....(((((......))))).))).)).)))........)))))))..((((((.-----.....)))))). ( -34.50)
>consensus
UAAAAAGCGAGUUUGUGUUUUUGUUGUUCUAAGCACGUUGGAAAAGUGAGAAGCGCAUAGAACGGCGCACGCGUCGCGCUGAGAAG_______CGAUCUCAUG_____AUGAGAUGAGGA
.....((((....(((((...((((((((((.((.(................).)).)))))))))).)))))...))))...............(((((((......)))))))..... (-28.05 = -28.24 +   0.19)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,583,241 – 14,583,349
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.35
Mean single sequence MFE -24.34
Consensus MFE -22.31
Energy contribution -22.51
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -2.21
Structure conservation index 0.92
SVM decision value 2.84
SVM RNA-class probability 0.997360
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14583241 108 - 23771897
UCCUCAUCUCAU-----CAUGAGAUCG-------CUUCUCAGCGCGACGCGUGCGCUGUUCUAUGCGCUUCUCACUUUUCCAACGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((..-----...))))).(-------(.....((((((.....))))))((((((.((((................)))).)))))).................))...... ( -24.99)
>DroSec_CAF1 57911 108 - 1
UCCUCAUCUCAU-----CAUGAGAUCG-------CUUCUCAGCGCGACGCGUGCGCCGUUCUAUGCGCUUCUCACUUUUCCAACGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((..-----...))))).(-------((....)))((((.((....)).((((((.((((................)))).))))))...............))))...... ( -23.69)
>DroSim_CAF1 59887 108 - 1
UCCUCAUCUCAU-----CAUGAGAUCG-------CUUCUCAGCGCGACGCGUGCGCCGUUCUAUGCGCUUCUCACUUUUCCAACGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((..-----...))))).(-------((....)))((((.((....)).((((((.((((................)))).))))))...............))))...... ( -23.69)
>DroEre_CAF1 57999 108 - 1
UCCUCAUCUCAU-----CAUGAGAUCG-------CUUCUCAGCGCGACGCGUGCGCCGUUCUAUGCGCUUCUCACUUUUCCAAUGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((..-----...))))).(-------((....)))((((.((....)).((((((.((((................)))).))))))...............))))...... ( -24.29)
>DroYak_CAF1 59790 113 - 1
UCCUCAUCUCAUCAGAUCAUGAGAUCG-------CUUCUCAGCGCGACGCGUGCGCCGUUCUAUGCGCUUCUCACUUUUCCAACGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((((......))))))).(-------((....)))((((.((....)).((((((.((((................)))).))))))...............))))...... ( -25.39)
>DroAna_CAF1 54078 115 - 1
UCCUCAUCUCAU-----CAUGAGAUCGCGAAUCACUUCUCAGCUCGACGCGUGCGCCGUUCUUGGCACUUCUCACUUUUCCAGCGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((..-----...))))).((((...........((.((...)).))...(((((.(((((................))))).)))))...............))))...... ( -23.99)
>consensus
UCCUCAUCUCAU_____CAUGAGAUCG_______CUUCUCAGCGCGACGCGUGCGCCGUUCUAUGCGCUUCUCACUUUUCCAACGUGCUUAGAACAACAAAAACACAAACUCGCUUUUUA
.....(((((((......)))))))................(((((.....))))).((((((.((((................)))).))))))......................... (-22.31 = -22.51 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:19 2006