Locus 3341

Sequence ID 3R_DroMel_CAF1
Location 8,994,272 – 8,994,365
Length 93
Max. P 0.930581
window5381 window5382

overview

Window 1

Location 8,994,272 – 8,994,365
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 98.28
Mean single sequence MFE -25.54
Consensus MFE -24.48
Energy contribution -24.52
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.49
Structure conservation index 0.96
SVM decision value 1.15
SVM RNA-class probability 0.923172
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8994272 93 + 27905053
AUGGAAACAAAUUGGAUUGUCGGGCUUUACCGAAGCCCUAACUGCAAAUAUCUGGUAUUUGCACAUUGCAGUUGCAUUUAUUGAAAGUGGCUG
.((....))............(((((((...)))))))....(((((((((...))))))))).....((((..(.(((....))))..)))) ( -25.10)
>DroSec_CAF1 108387 93 + 1
GUGGAAACAAAUUGGAUUGUCGGGCUUUACCGAAGCCCUAACUGCAAAUAUCUGGUAUUUGCACAUUGCAGUUGCAUUCAUUGAAAGUGGCUG
.((....))............(((((((...)))))))....(((((((((...))))))))).....((((..(.(((...))).)..)))) ( -26.40)
>DroSim_CAF1 111526 93 + 1
GUGGAAACAAAUUGGAUUGUCGGGCUUUACCGAAGCCCUAACUGCAAAUAUCUGGUAUUUGCACAUUGCAGUUGCAUUCAUUGAAAGUGGCUG
.((....))............(((((((...)))))))....(((((((((...))))))))).....((((..(.(((...))).)..)))) ( -26.40)
>DroEre_CAF1 113652 93 + 1
GUGGAAACAAAUUGGAUUGUCGGGCUUUACCGAAGCCCUAACUGCAAAUAUCUGGUAUUUGCACAUUGCAGUUGCAUUCAUUGAAAGUGGCUG
.((....))............(((((((...)))))))....(((((((((...))))))))).....((((..(.(((...))).)..)))) ( -26.40)
>DroYak_CAF1 115044 93 + 1
GUGGAAACAAAUUGGAUCGUCGGGCUUUACCGAAGCCCUAACUGCAAAUAUCUGGUAUUUGCACAUUGCAGUUGCAUUCAUUGAAAAUGGCUG
.((....)).........((((((((((...)))))))(((((((((.....((((....)).)))))))))))..............))).. ( -23.40)
>consensus
GUGGAAACAAAUUGGAUUGUCGGGCUUUACCGAAGCCCUAACUGCAAAUAUCUGGUAUUUGCACAUUGCAGUUGCAUUCAUUGAAAGUGGCUG
.((....))............(((((((...)))))))....(((((((((...))))))))).....((((..(.(((...))).)..)))) (-24.48 = -24.52 +   0.04)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 8,994,272 – 8,994,365
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 98.28
Mean single sequence MFE -21.02
Consensus MFE -20.80
Energy contribution -20.64
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.44
Structure conservation index 0.99
SVM decision value 1.21
SVM RNA-class probability 0.930581
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8994272 93 - 27905053
CAGCCACUUUCAAUAAAUGCAACUGCAAUGUGCAAAUACCAGAUAUUUGCAGUUAGGGCUUCGGUAAAGCCCGACAAUCCAAUUUGUUUCCAU
.................(((....)))...((((((((.....))))))))....((((((.....))))))(((((......)))))..... ( -20.70)
>DroSec_CAF1 108387 93 - 1
CAGCCACUUUCAAUGAAUGCAACUGCAAUGUGCAAAUACCAGAUAUUUGCAGUUAGGGCUUCGGUAAAGCCCGACAAUCCAAUUUGUUUCCAC
.................(((....)))...((((((((.....))))))))....((((((.....))))))(((((......)))))..... ( -20.70)
>DroSim_CAF1 111526 93 - 1
CAGCCACUUUCAAUGAAUGCAACUGCAAUGUGCAAAUACCAGAUAUUUGCAGUUAGGGCUUCGGUAAAGCCCGACAAUCCAAUUUGUUUCCAC
.................(((....)))...((((((((.....))))))))....((((((.....))))))(((((......)))))..... ( -20.70)
>DroEre_CAF1 113652 93 - 1
CAGCCACUUUCAAUGAAUGCAACUGCAAUGUGCAAAUACCAGAUAUUUGCAGUUAGGGCUUCGGUAAAGCCCGACAAUCCAAUUUGUUUCCAC
.................(((....)))...((((((((.....))))))))....((((((.....))))))(((((......)))))..... ( -20.70)
>DroYak_CAF1 115044 93 - 1
CAGCCAUUUUCAAUGAAUGCAACUGCAAUGUGCAAAUACCAGAUAUUUGCAGUUAGGGCUUCGGUAAAGCCCGACGAUCCAAUUUGUUUCCAC
..((.((((.....))))))((((((((....(........)....)))))))).((((((.....))))))(((((......)))))..... ( -22.30)
>consensus
CAGCCACUUUCAAUGAAUGCAACUGCAAUGUGCAAAUACCAGAUAUUUGCAGUUAGGGCUUCGGUAAAGCCCGACAAUCCAAUUUGUUUCCAC
.................(((....)))...((((((((.....))))))))....((((((.....))))))(((((......)))))..... (-20.80 = -20.64 +  -0.16)

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 10:58:48 2006