Locus 5284

Sequence ID 2L_DroMel_CAF1
Location 14,897,580 – 14,897,768
Length 188
Max. P 0.870306
window8404 window8405 window8406

overview

Window 4

Location 14,897,580 – 14,897,690
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 90.49
Mean single sequence MFE -18.84
Consensus MFE -13.30
Energy contribution -13.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.71
SVM decision value 0.51
SVM RNA-class probability 0.763061
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14897580 110 + 22407834
CACCCGCUCCUGGAGCAUAUCUAUUCUGCAGUUGCUGUCAACAUUUUUCAUAUCAUAAACACUUUUAGUGUUGAUAUUACCAACAAUAACUUUCACGCUCCUCACACACA
...........(((((...........((....))((((((((((.....................))))))))))....................)))))......... ( -18.40)
>DroPse_CAF1 115508 106 + 1
GUGGCUCGGUCGGAGCAUAUCUAUUCUGCAGUUGCUGUCAACAUUUUUCAUAUCAUAAACACUUUUAGUGUUGAUAUUACCAACAAUAACUUUU----CCCUCACACACA
(((((((.....))))..............((((.((((((((((.....................))))))))))....))))..........----......)))... ( -19.50)
>DroSec_CAF1 55259 108 + 1
CACCCUCUCCUGGAGCAUAUCUAUUCUGCAGUUGCUGUCAACAUUUUUCAUAUCAUAAACACUUUUAGUGUUGAUAUUACCAACAAUAACUUUCACGCUCCUCACACU--
...........(((((...........((....))((((((((((.....................))))))))))....................))))).......-- ( -18.40)
>DroSim_CAF1 55135 108 + 1
CACCCUCUCCUGGAGCAUAUCUAUUCUGCAGUUGCUGUCAACAUUUUUCAUAUCAUAAACACUUUUAGUGUUGAUAUUACCAACAAUAACUUUCACGCUCCUCACACA--
...........(((((...........((....))((((((((((.....................))))))))))....................))))).......-- ( -18.40)
>DroPer_CAF1 98085 106 + 1
GUGGCUCGGUCGGAGCAUAUCUAUUCUGCAGUUGCUGUCAACAUUUUUCAUAUCAUAAACACUUUUAGUGUUGAUAUUACCAACAAUAACUUUU----CCCUCACACACA
(((((((.....))))..............((((.((((((((((.....................))))))))))....))))..........----......)))... ( -19.50)
>consensus
CACCCUCUCCUGGAGCAUAUCUAUUCUGCAGUUGCUGUCAACAUUUUUCAUAUCAUAAACACUUUUAGUGUUGAUAUUACCAACAAUAACUUUCACGCUCCUCACACACA
...........((.(((.........))).((((.((((((((((.....................))))))))))....))))...............))......... (-13.30 = -13.30 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,897,580 – 14,897,690
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 90.49
Mean single sequence MFE -24.42
Consensus MFE -20.90
Energy contribution -22.02
Covariance contribution 1.12
Combinations/Pair 1.07
Mean z-score -1.57
Structure conservation index 0.86
SVM decision value 0.87
SVM RNA-class probability 0.870306
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14897580 110 - 22407834
UGUGUGUGAGGAGCGUGAAAGUUAUUGUUGGUAAUAUCAACACUAAAAGUGUUUAUGAUAUGAAAAAUGUUGACAGCAACUGCAGAAUAGAUAUGCUCCAGGAGCGGGUG
..(((....((((((((...((((..(((....((((((((((.....))))...))))))....)))..)))).((....))........))))))))....))).... ( -26.70)
>DroPse_CAF1 115508 106 - 1
UGUGUGUGAGGG----AAAAGUUAUUGUUGGUAAUAUCAACACUAAAAGUGUUUAUGAUAUGAAAAAUGUUGACAGCAACUGCAGAAUAGAUAUGCUCCGACCGAGCCAC
.(((.((..((.----...((((.(((((..((((((((((((.....))))...))))))......))..))))).))))(((.........))).....))..))))) ( -21.60)
>DroSec_CAF1 55259 108 - 1
--AGUGUGAGGAGCGUGAAAGUUAUUGUUGGUAAUAUCAACACUAAAAGUGUUUAUGAUAUGAAAAAUGUUGACAGCAACUGCAGAAUAGAUAUGCUCCAGGAGAGGGUG
--.......((((((((...((((..(((....((((((((((.....))))...))))))....)))..)))).((....))........))))))))........... ( -26.10)
>DroSim_CAF1 55135 108 - 1
--UGUGUGAGGAGCGUGAAAGUUAUUGUUGGUAAUAUCAACACUAAAAGUGUUUAUGAUAUGAAAAAUGUUGACAGCAACUGCAGAAUAGAUAUGCUCCAGGAGAGGGUG
--.......((((((((...((((..(((....((((((((((.....))))...))))))....)))..)))).((....))........))))))))........... ( -26.10)
>DroPer_CAF1 98085 106 - 1
UGUGUGUGAGGG----AAAAGUUAUUGUUGGUAAUAUCAACACUAAAAGUGUUUAUGAUAUGAAAAAUGUUGACAGCAACUGCAGAAUAGAUAUGCUCCGACCGAGCCAC
.(((.((..((.----...((((.(((((..((((((((((((.....))))...))))))......))..))))).))))(((.........))).....))..))))) ( -21.60)
>consensus
UGUGUGUGAGGAGCGUGAAAGUUAUUGUUGGUAAUAUCAACACUAAAAGUGUUUAUGAUAUGAAAAAUGUUGACAGCAACUGCAGAAUAGAUAUGCUCCAGGAGAGGGUG
.........((((((((...((((..(((....((((((((((.....))))...))))))....)))..)))).((....))........))))))))........... (-20.90 = -22.02 +   1.12)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,897,660 – 14,897,768
Length 108
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 96.88
Mean single sequence MFE -33.83
Consensus MFE -30.37
Energy contribution -30.70
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 0.90
SVM decision value 0.10
SVM RNA-class probability 0.584240
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14897660 108 - 22407834
AAGGAUGAACCUUCACAAAUACACGACGGGUGGGCGUGUCGCUCAUGCCAAAUAUCCUUGCUGUUAAGCUUGUGUGUGUGUGUGUGAGGAGCGUGAAAGUUAUUGUUG
....(((..((((((((.((((((((.(((((((((((.....))))))...)))))..(((....)))))))))))...)))).))))..))).............. ( -34.30)
>DroSec_CAF1 55339 104 - 1
AAGGAUGAACCUUCACAAAUACACGACGGGUGGGCGUGUCGCUCAUGCCAAAUAUCCUUGCUGUUAAGCUUGUGUG----AGUGUGAGGAGCGUGAAAGUUAUUGUUG
...((..(..(((((((..(((((((.(((((((((((.....))))))...)))))..(((....))))))))))----..)))))))(((......))).)..)). ( -33.00)
>DroSim_CAF1 55215 104 - 1
AAGGAUGAACCUUCACAAAUACACGACGGGUGGGCGUGUCGCUCAUGCCAAAUAUCCUUGCUGUUAAGCUUGUGUG----UGUGUGAGGAGCGUGAAAGUUAUUGUUG
...((..(..(((((((.((((((((.(((((((((((.....))))))...)))))..(((....))))))))))----).)))))))(((......))).)..)). ( -34.20)
>consensus
AAGGAUGAACCUUCACAAAUACACGACGGGUGGGCGUGUCGCUCAUGCCAAAUAUCCUUGCUGUUAAGCUUGUGUG____UGUGUGAGGAGCGUGAAAGUUAUUGUUG
....(((..((((((((..(((((((.(((((((((((.....))))))...)))))..(((....))))))))))....)))).))))..))).............. (-30.37 = -30.70 +   0.33)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:31 2006