Locus 5093

Sequence ID X_DroMel_CAF1
Location 13,313,999 – 13,314,114
Length 115
Max. P 0.998762
window8284 window8285

overview

Window 4

Location 13,313,999 – 13,314,114
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.51
Mean single sequence MFE -26.42
Consensus MFE -24.36
Energy contribution -24.62
Covariance contribution 0.25
Combinations/Pair 1.09
Mean z-score -2.67
Structure conservation index 0.92
SVM decision value 3.22
SVM RNA-class probability 0.998762
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13313999 115 + 22224390
CGAAGCGAACACAUUUACACAUGUAAGUGCAUAAAAAAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUACCAGGGCAUUAAAAAUGCCUUUCCCC-----AAU
.((((......(((((((....)))))))((((((.....))))))..)))).((((((((((.(.....).)))).)))))).....(((((((.....))))))).....-----... ( -26.90)
>DroVir_CAF1 64752 109 + 1
CGGAGGAGACACAUUUACACAUGUA-GUGCAUAA--AAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUUCCAAGGCAUUUAA-AUGCUUUUGCUU-------U
.((((....)(((((((....((.(-((.(((((--.....))))).))).)).....(((((.(.....).))))).))))))))))(((((((....-))))))).....-------. ( -25.30)
>DroPse_CAF1 74838 120 + 1
AGAACCGAACACAUUUACACAUGUAAGUGCAUAAAAAAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUACCAAGGCAUUAAAAACGCCUUGCUCCUCGCUACU
.((((.(((..(((((((....)))))))((((((.....))))))...))).)))).(((((.(.....).)))))..........((((((.........))))))............ ( -27.40)
>DroEre_CAF1 18305 115 + 1
CGAAGCGAACACAUUUACACAUGUAAGUGCAUAAAAAAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUACCAAGGCAUUAAAAAUGCCUUUCCCC-----AAU
.((((......(((((((....)))))))((((((.....))))))..)))).((((((((((.(.....).)))).)))))).....(((((((.....))))))).....-----... ( -27.20)
>DroYak_CAF1 17770 115 + 1
CGAAGCGAACACAUUUACACAUGUAAGUGCAUAAAAAAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUACCAAGGCAUUAAAAAUGCCUUUCCCC-----AAU
.((((......(((((((....)))))))((((((.....))))))..)))).((((((((((.(.....).)))).)))))).....(((((((.....))))))).....-----... ( -27.20)
>DroPer_CAF1 74767 120 + 1
AGAACCGAACACAUUUACACAUGUAAGUGCAUAAAAAAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUACCAAGGCAUUAAAAACGCCUUUCUCCUCGCUACU
.((((.(((..(((((((....)))))))((((((.....))))))...))).)))).(((((.(.....).)))))...........(((((.........)))))............. ( -24.50)
>consensus
CGAAGCGAACACAUUUACACAUGUAAGUGCAUAAAAAAUGUUUAUGAAUUUCAGUUUAUGGCGCGUAAAACACGCCAAUAAAUGUACCAAGGCAUUAAAAAUGCCUUUCCCC_____AAU
.(((.......(((((((....)))))))((((((.....))))))...))).((((((((((.(.....).)))).)))))).....(((((((.....)))))))............. (-24.36 = -24.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,313,999 – 13,314,114
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.51
Mean single sequence MFE -30.08
Consensus MFE -25.41
Energy contribution -25.68
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -2.22
Structure conservation index 0.84
SVM decision value 0.94
SVM RNA-class probability 0.886006
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13313999 115 - 22224390
AUU-----GGGGAAAGGCAUUUUUAAUGCCCUGGUACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUUUUUUAUGCACUUACAUGUGUAAAUGUGUUCGCUUCG
...-----((.(((.(((((.....)))))....((((((((.(((((((.....)))))))............((((((.....))))))(((......)))))))))))))).))... ( -28.30)
>DroVir_CAF1 64752 109 - 1
A-------AAGCAAAAGCAU-UUAAAUGCCUUGGAACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUU--UUAUGCAC-UACAUGUGUAAAUGUGUCUCCUCCG
.-------........((((-....))))...(((.(((((((.((((((.....))))))))))).))..........(((((--...(((((-.....))))))))))......))). ( -25.10)
>DroPse_CAF1 74838 120 - 1
AGUAGCGAGGAGCAAGGCGUUUUUAAUGCCUUGGUACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUUUUUUAUGCACUUACAUGUGUAAAUGUGUUCGGUUCU
........(.(.((((((((.....)))))))).).)......(((((((.....)))))))..(((((((........(((((.....(((((......)))))))))).))))))).. ( -33.70)
>DroEre_CAF1 18305 115 - 1
AUU-----GGGGAAAGGCAUUUUUAAUGCCUUGGUACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUUUUUUAUGCACUUACAUGUGUAAAUGUGUUCGCUUCG
...-----((((.(((((((.....)))))))..((((((((.(((((((.....)))))))............((((((.....))))))(((......)))))))))))....)))). ( -30.50)
>DroYak_CAF1 17770 115 - 1
AUU-----GGGGAAAGGCAUUUUUAAUGCCUUGGUACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUUUUUUAUGCACUUACAUGUGUAAAUGUGUUCGCUUCG
...-----((((.(((((((.....)))))))..((((((((.(((((((.....)))))))............((((((.....))))))(((......)))))))))))....)))). ( -30.50)
>DroPer_CAF1 74767 120 - 1
AGUAGCGAGGAGAAAGGCGUUUUUAAUGCCUUGGUACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUUUUUUAUGCACUUACAUGUGUAAAUGUGUUCGGUUCU
.(((.(((((..((((....))))....))))).)))......(((((((.....)))))))..(((((((........(((((.....(((((......)))))))))).))))))).. ( -32.40)
>consensus
AUU_____GGGGAAAGGCAUUUUUAAUGCCUUGGUACAUUUAUUGGCGUGUUUUACGCGCCAUAAACUGAAAUUCAUAAACAUUUUUUAUGCACUUACAUGUGUAAAUGUGUUCGCUUCG
.............(((((((.....)))))))..(((((((..(((((((.....)))))))............................((((......)))))))))))......... (-25.41 = -25.68 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:59 2006