Locus 1313

Sequence ID X_DroMel_CAF1
Location 3,908,771 – 3,908,883
Length 112
Max. P 0.555690
window2096

overview

Window 6

Location 3,908,771 – 3,908,883
Length 112
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 83.07
Mean single sequence MFE -25.17
Consensus MFE -17.19
Energy contribution -16.97
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.68
SVM decision value 0.04
SVM RNA-class probability 0.555690
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3908771 112 + 22224390
UGCC-----AUAAAUUCGACGGGGACACAGAAAUCAAUGUAUUUCAUUAAUGGCCCGAAUGUGUGCCGGCUGUAAUGGGCUUUAUUGCC-AUUGUUGUUAUUAAUAUUGGCAUGCAAC
.(((-----((.........(....)...(((((......)))))....))))).....(((((((((((.((((......)))).)))-..(((((....)))))..)))))))).. ( -29.40)
>DroVir_CAF1 100738 100 + 1
CGCC-----------------CUAACACACAAAUCAAUGUAUUUCAUUAAUGGC-AAAAUGUGUGCCGGCUCUAAUAGGCUUUAUUGCCCAUUGUUAUUAUUAAUAUUGGCAUGCAAC
.(((-----------------...........((.((((.....)))).)))))-....((((((((((........(((......)))...(((((....))))))))))))))).. ( -20.00)
>DroPse_CAF1 35186 101 + 1
---------A-GGAUCC------GACACAGAAAUCAAUGUAUUUCAUUAAUGGCUCAAAUGUGUGCCGGCUCUAAUAGGCUUUAUUGCC-AUUGUUGUUAUUAAUAUUGGCAUGCAAC
---------.-(((.((------(.(((.(((((......))))).......((......))))).))).))).....((.....((((-(.(((((....))))).))))).))... ( -23.40)
>DroGri_CAF1 89828 110 + 1
CGCCCCACCU-GUGU------GUAACACAGAAAUCAAUGUAUUUCAUUAAUGGC-AAAAUGUGUGCCGGCUCUAAUAGGCUUUAUUGCCUAUUGUUAUUAUUAAUAUUGGCAUGCAAC
.(((....((-(((.------....))))).....((((.....))))...)))-....((((((((((....(((((((......)))))))((((....)))).)))))))))).. ( -32.90)
>DroWil_CAF1 15320 94 + 1
---------------------GUAACACAAAAAUCAAUGUAUUUCAUUAAUGGU--AAAUGUGUGCCGGGUCUAAUGGGCUUUAUUGCC-AAUGUUCUUAUUAAUAUUGGCAUGCAAC
---------------------((((((((...(((((((.....)))...))))--...)))))(((.(......).))).....((((-((((((......)))))))))))))... ( -21.90)
>DroPer_CAF1 22596 101 + 1
---------A-GGAUCC------GACACAGAAAUCAAUGUAUUUCAUUAAUGGCUCAAAUGUGUGCCGGCUCUAAUAGGCUUUAUUGCC-AUUGUUGUUAUUAAUAUUGGCAUGCAAC
---------.-(((.((------(.(((.(((((......))))).......((......))))).))).))).....((.....((((-(.(((((....))))).))))).))... ( -23.40)
>consensus
_________A_G_AU______GUAACACAGAAAUCAAUGUAUUUCAUUAAUGGC_CAAAUGUGUGCCGGCUCUAAUAGGCUUUAUUGCC_AUUGUUGUUAUUAAUAUUGGCAUGCAAC
...................................((((.....))))...........((((((((((...((((((((......))).........)))))...)))))))))).. (-17.19 = -16.97 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:19 2006