Locus 3682

Sequence ID 3R_DroMel_CAF1
Location 9,979,392 – 9,979,506
Length 114
Max. P 0.946278
window5913 window5914

overview

Window 3

Location 9,979,392 – 9,979,506
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.56
Mean single sequence MFE -32.09
Consensus MFE -25.64
Energy contribution -26.52
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -1.64
Structure conservation index 0.80
SVM decision value 0.27
SVM RNA-class probability 0.660450
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9979392 114 + 27905053
UAAGCUGUAUAUCUUCCCAGCGGAAUACACUCCGCCUGGUGGCUCCGAUUUCCAUACUGAUGUACUGGUUCUUGUAAAAUAUCCAGCAUUGU-----GUCCUU-CGAACACAACUUUCAA
...((((.((((..((((((((((......)))).)))).))....((...((((((....))).))).)).......)))).)))).((((-----((....-...))))))....... ( -27.30)
>DroSec_CAF1 61812 120 + 1
UAAGCUGGAUAUCUUCCCAGGGGAAUACACUCUGCCUGGUGGCUCCGAUUUCCAUACUGUUGUACUGGUUCUUGCACAAUAUCCAGCAUACUGUAUUGUCCCGGGGAACAGAACUUUCAA
...(((((((((....((((((((......))).)))))((((...((...((((((....))).))).))..)).)))))))))))...((((....(((...)))))))......... ( -33.30)
>DroSim_CAF1 61773 119 + 1
UAAGCUGGAUAUCUUCCCAGGGGAAUACACUCCGCCUGGUGGCUCCGAUUUCCAUACUGUUGUACUGGUUCUUGCACAAUAUCCAGCAUACUGUAAUGUCCUG-GGAACACAACUUUCAA
...(((((((((....((((((((......))).)))))((((...((...((((((....))).))).))..)).)))))))))))..........((..((-....))..))...... ( -34.70)
>DroEre_CAF1 66302 114 + 1
UAUGCUGGAUAUUUUCCCAGGGGCACACACUCCGCCUGGUGGCUCCGAUUUCCAUACUGCUGCACUGGUUCUUGCGCAACAUCCAGCAUUGU-----GUCCUU-GGAUUAUAACUUUCAA
..((((((((.........(((((.(((.(.......)))))))))...........(((.(((........))))))..))))))))((((-----(((...-.)).)))))....... ( -30.90)
>DroYak_CAF1 64702 108 + 1
UAUGCUGGAUAUCUGCCCAGGGGAAUGCACUCCGCCUGGUGGCUACGAUUUCCAUACUGCUGCACUGGUUCUUGCGCAAUAUCCAGCAUUGU-----GUCCUU-GGAG------UUUUCA
.(((((((((((.(((.(((((((......)))(((..(..((...............))..)...))).)))).))))))))))))))...-----.((...-.)).------...... ( -34.26)
>consensus
UAAGCUGGAUAUCUUCCCAGGGGAAUACACUCCGCCUGGUGGCUCCGAUUUCCAUACUGCUGUACUGGUUCUUGCACAAUAUCCAGCAUUGU_____GUCCUU_GGAACACAACUUUCAA
...(((((((((...(((((((((......))).))))).)((...((...((((((....))).))).))..))...)))))))))................................. (-25.64 = -26.52 +   0.88)

alignment

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secondary structure

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dotplot

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Window 4

Location 9,979,392 – 9,979,506
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.56
Mean single sequence MFE -36.78
Consensus MFE -27.40
Energy contribution -27.64
Covariance contribution 0.24
Combinations/Pair 1.12
Mean z-score -2.37
Structure conservation index 0.74
SVM decision value 1.36
SVM RNA-class probability 0.946278
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9979392 114 - 27905053
UUGAAAGUUGUGUUCG-AAGGAC-----ACAAUGCUGGAUAUUUUACAAGAACCAGUACAUCAGUAUGGAAAUCGGAGCCACCAGGCGGAGUGUAUUCCGCUGGGAAGAUAUACAGCUUA
......((((((((..-...)))-----)))))((((.(((((((.......(((.(((....))))))............((.(((((((....))))))).))))))))).))))... ( -35.20)
>DroSec_CAF1 61812 120 - 1
UUGAAAGUUCUGUUCCCCGGGACAAUACAGUAUGCUGGAUAUUGUGCAAGAACCAGUACAACAGUAUGGAAAUCGGAGCCACCAGGCAGAGUGUAUUCCCCUGGGAAGAUAUCCAGCUUA
......((..(((((....)))))..)).....((((((((((.((((....(((.(((....))))))........(((....)))....))))((((....))))))))))))))... ( -36.40)
>DroSim_CAF1 61773 119 - 1
UUGAAAGUUGUGUUCC-CAGGACAUUACAGUAUGCUGGAUAUUGUGCAAGAACCAGUACAACAGUAUGGAAAUCGGAGCCACCAGGCGGAGUGUAUUCCCCUGGGAAGAUAUCCAGCUUA
......((.(((((..-...))))).)).....(((((((((((.((..((.(((.(((....))))))...))...))).(((((.((((....)))))))))...))))))))))... ( -38.30)
>DroEre_CAF1 66302 114 - 1
UUGAAAGUUAUAAUCC-AAGGAC-----ACAAUGCUGGAUGUUGCGCAAGAACCAGUGCAGCAGUAUGGAAAUCGGAGCCACCAGGCGGAGUGUGUGCCCCUGGGAAAAUAUCCAGCAUA
................-......-----...((((((((((((((((........)))))))....(((.........)))(((((.((........)))))))......))))))))). ( -35.30)
>DroYak_CAF1 64702 108 - 1
UGAAAA------CUCC-AAGGAC-----ACAAUGCUGGAUAUUGCGCAAGAACCAGUGCAGCAGUAUGGAAAUCGUAGCCACCAGGCGGAGUGCAUUCCCCUGGGCAGAUAUCCAGCAUA
......------....-......-----...((((((((((((((((........)))).((....(((.........)))(((((.((((....))))))))))).)))))))))))). ( -38.70)
>consensus
UUGAAAGUUGUGUUCC_AAGGAC_____ACAAUGCUGGAUAUUGUGCAAGAACCAGUACAACAGUAUGGAAAUCGGAGCCACCAGGCGGAGUGUAUUCCCCUGGGAAGAUAUCCAGCUUA
.................................((((((((((.........(((.(((....))))))............(((((.((((....)))))))))...))))))))))... (-27.40 = -27.64 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:22 2006