Locus 3492

Sequence ID 3R_DroMel_CAF1
Location 9,430,314 – 9,430,409
Length 95
Max. P 0.953516
window5612

overview

Window 2

Location 9,430,314 – 9,430,409
Length 95
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.30
Mean single sequence MFE -16.43
Consensus MFE -8.78
Energy contribution -9.08
Covariance contribution 0.31
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.53
SVM decision value 1.43
SVM RNA-class probability 0.953516
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9430314 95 - 27905053
-----------AAGAAAAAGAAAAGCGAGGCUGCCAACAAUA-GC-------------AAAAUUAACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGCGAAAGUUUUUGCGCU
-----------.............((((.((((.......))-))-------------.((((((((....)))))))).....))))........((((((.((....))..)))))). ( -22.10)
>DroVir_CAF1 105827 100 - 1
-----------------AAGAAA-ACGGCAA-AGCAACAGGA-AUAAAAACAGAAAAAAAAAUUAACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGUGAAAGUUUUUGCGUC
-----------------......-...((((-(((((..(..-.......)........((((((((....)))))))).....)))).((((.........))))......)))))... ( -13.60)
>DroPse_CAF1 58091 89 - 1
GAAG-----------------AAAAAGAAACUGGCAACAAGA-AC-------------AAAAUUAACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGCGAAAGUUUUUGCUCU
..((-----------------(...(((((((.((.......-..-------------.((((((((....))))))))....(((((.((....)).)))))))...)))))))..))) ( -15.80)
>DroGri_CAF1 104397 87 - 1
-----------------AAGAAA-ACGAGAA-AGUAACAAGA-AC-------------AAAAUUAACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGUGAAAGUUUUUGCGUC
-----------------......-.......-.....(((((-((-------------.((((((((....))))))))....(((((.((....)).)))))......))))))).... ( -14.10)
>DroWil_CAF1 63813 83 - 1
-----------------AAGAAA------ACUGGCAACAAGAAGG-------------AGAACUCACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGCGAAAGUUUUA-CAAU
-----------------...(((------(((...(((((....(-------------(....))....)))))..((((...(((((.((....)).))))).)))))))))).-.... ( -12.80)
>DroAna_CAF1 56495 101 - 1
---AAAAUUAAAU--AAAAGAAAGUCCGGACUGGCAACAAGA-GC-------------AAAAUUAACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGCGAAAGUUUUUGCGCA
---..........--....(..(((....)))..)..(((..-..-------------.((((((((....)))))))).....)))........(((((((.((....))..))))))) ( -20.20)
>consensus
_________________AAGAAA_ACGAGACUGGCAACAAGA_AC_____________AAAAUUAACAAUUGUUAAUUUGAAAAUUGCACACAAAUGCGUAAUGCGAAAGUUUUUGCGCU
...........................................................((((((((....)))))))).......(((......)))((((.((....))..))))... ( -8.78 =  -9.08 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:28 2006