Locus 2005

Sequence ID 2L_DroMel_CAF1
Location 5,434,541 – 5,434,637
Length 96
Max. P 0.579152
window3228

overview

Window 8

Location 5,434,541 – 5,434,637
Length 96
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 77.34
Mean single sequence MFE -26.45
Consensus MFE -18.65
Energy contribution -18.85
Covariance contribution 0.20
Combinations/Pair 1.18
Mean z-score -1.02
Structure conservation index 0.71
SVM decision value 0.09
SVM RNA-class probability 0.579152
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5434541 96 - 22407834
-UAUCGAUUGCCCGCCAUAAAAUCGAUCAUUAGCGCUGUUAAUUUGCAGCAACAAAGAGUGUGGC-----GCGUUGAUGGCAACGCUUCAACAGUU-C-------CAGUU
-....(((((...((((((...(((........)(((((......)))))......)).))))))-----((((((....)))))).....)))))-.-------..... ( -26.00)
>DroVir_CAF1 79442 87 - 1
UUAUCGAUUG----CUAUAAAAUCGAUCAUUAACGCUGUUAAUUUGCUGCGCC-CCGC-----GA-----GCGUUGAUGGCAACGCAUCGACAGCU-GAG-----CAA--
..(((((((.----......))))))).......((((((........(((..-.)))-----((-----((((((....)))))).)))))))).-...-----...-- ( -25.30)
>DroPse_CAF1 63690 102 - 1
CUAUCGAUUGGCCGCUAUAAAAUCGAUCAUUAACGCUGUUAAUUUGCUGCGACAAAGCGCACGGCGCGUCGCGUUGAUGGCAACGCUUCAACAGUU-C-------CGUUC
..(((((((...........))))))).......((((((.....((.(((((...((((...)))))))))((((....))))))...)))))).-.-------..... ( -26.90)
>DroGri_CAF1 85628 99 - 1
CUAUCGAUUG----CUAUAAAAUCGAUCAUUAACGCUGUUAAUUUGCGACGCU-CAGCUUUGGGA-----GCGUUGAUGGCAACGCACCGACAGUU-AAGUUAAGCAGUU
..(((((((.----......))))))).((((((...))))))((((...(((-.((((((((..-----((((((....)))))).)))).))))-.)))...)))).. ( -28.10)
>DroAna_CAF1 58834 96 - 1
-UAUCGAUUGC-CGCUAUAAAAUCGAUCAUUAGCGCUGUUAAUUUGCAGCGACAAAGAGCGUAGC-----GCGUUGAUGGCAACGCUUCAACAGUUUC-------UGGUU
-........((-(((((......((.((.((..((((((......))))))..)).)).))))))-----((((((....))))))............-------.))). ( -25.50)
>DroPer_CAF1 63351 102 - 1
CUAUCGAUUGGCCGCUAUAAAAUCGAUCAUUAACGCUGUUAAUUUGCUGCGACAAAGCGCACGGCGCGUCGCGUUGAUGGCAACGCUUCAACAGUU-C-------CGUUC
..(((((((...........))))))).......((((((.....((.(((((...((((...)))))))))((((....))))))...)))))).-.-------..... ( -26.90)
>consensus
CUAUCGAUUG__CGCUAUAAAAUCGAUCAUUAACGCUGUUAAUUUGCUGCGACAAAGCGCACGGC_____GCGUUGAUGGCAACGCUUCAACAGUU_C_______CAGUU
..(((((((...........))))))).......((((((........(((......)))..........((((((....))))))...))))))............... (-18.65 = -18.85 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:55 2006