Locus 1344

Sequence ID 3L_DroMel_CAF1
Location 3,892,820 – 3,892,931
Length 111
Max. P 0.803075
window2095

overview

Window 5

Location 3,892,820 – 3,892,931
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.57
Mean single sequence MFE -27.28
Consensus MFE -18.89
Energy contribution -18.50
Covariance contribution -0.39
Combinations/Pair 1.16
Mean z-score -1.61
Structure conservation index 0.69
SVM decision value 0.62
SVM RNA-class probability 0.803075
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3892820 111 - 23771897
AACCCG-----CGAUUUUC-GACCGUGUGC-GU-UGAU-UGAAAGCCGCAAAAGUGGAUACCGAAACAGUGAAAAUCGAGGAUUUGAUGGACUCUGAUCCUGAAAUCGAGUUCAUUGAAA
...((.-----((((((((-(....(((..-.(-((..-......((((....))))....))).))).))))))))).)).((..((((((((.(((......)))))))))))..)). ( -32.20)
>DroVir_CAF1 3528 109 - 1
-CCCGA-----AAAAUAUU-UAGCAAG--U-GUUUAAG-AUAAAGCCGCAAAAGUGGAUACCGAUACCGUAAAAGUCGAGGAUUUGAUGGACUCUGAUCCUGACAUUGAGUUCAUUGAAA
-(((((-----.(((((((-.....))--)-))))...-......((((....))))..................))).)).((..((((((((.............))))))))..)). ( -22.72)
>DroGri_CAF1 3860 115 - 1
-CCCGGCAUAUAUAAUAUU-UAACGAA--UAGUUGAAA-AUAAAGCCGCAAAAGUGGAUACCGAUAACGUAAAAGUCGAGGAUUUGAUGGACUCUGAUCCUGAUAUUGAGUUCAUUGAAA
-((((((..........((-((((...--..)))))).-......((((....)))).................)))).)).((..((((((((..((....))...))))))))..)). ( -28.10)
>DroWil_CAF1 3722 112 - 1
GCCCAG-----UGAAUUUU-UGCCGCUAGU-GU-UAAAGAUAAAGCCGCAAAAGUGGAUACCGAUACUGUGAAAAUUGAGGAUUUGAUGGACUCUGAUCCUGAAAUUGAGUUCAUUGAAA
...(((-----(((((((.-...(((.(((-((-(..........((((....)))).....)))))))))....((.((((((.((.....)).)))))).))...))))))))))... ( -27.16)
>DroMoj_CAF1 3419 113 - 1
ACCCGACG---AGAAUAUUAUAACAAG--U-GUUUAAA-AUAAAGCCGCAAAAGUGGAUACCGAUAACGUAAAAAUUGAGGAUUUGAUGGACUCUGAUCCUGACAUUGAGUUCAUUGAAA
.(((((..---.(((((((......))--)-))))...-......((((....))))..................))).)).((..((((((((.............))))))))..)). ( -21.72)
>DroAna_CAF1 3585 111 - 1
ACCCCA-----CAAUUUUU-UAUUGUUAGC-GU-UGAG-GCAAAACCGCAAAAGUGGAUACCGAAACUGUGAAAAUUGAGGAUUUGAUGGACUCUGAUCCCGAAAUCGAGUUCAUCGAAA
...((.-----((((((((-....(((.((-..-....-))....((((....)))).......)))...)))))))).)).((((((((((((.(((......))))))))))))))). ( -31.80)
>consensus
ACCCGA_____AGAAUAUU_UAACGAG__U_GU_UAAA_AUAAAGCCGCAAAAGUGGAUACCGAUACCGUAAAAAUCGAGGAUUUGAUGGACUCUGAUCCUGAAAUUGAGUUCAUUGAAA
..((.........................................((((....))))....((((.........)))).)).((((((((((((.(((......))))))))))))))). (-18.89 = -18.50 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:15 2006