Locus 3527

Sequence ID X_DroMel_CAF1
Location 9,444,940 – 9,445,046
Length 106
Max. P 0.971913
window5773 window5774

overview

Window 3

Location 9,444,940 – 9,445,046
Length 106
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 90.09
Mean single sequence MFE -27.54
Consensus MFE -19.19
Energy contribution -18.87
Covariance contribution -0.32
Combinations/Pair 1.18
Mean z-score -2.46
Structure conservation index 0.70
SVM decision value -0.05
SVM RNA-class probability 0.506089
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9444940 106 + 22224390
AAACCCAUGAGCAUAUGUA--UACAUACUUAUAUGCAUAUGCCCGAGUAUGGUAAUCAAGGCGAACUUAUCAAAGUCAGCCGCACGAAAUUGCUACAAGGCACACGCC
....(((((.(((((((((--((........))))))))))).....))))).......(((..((((....))))..)))(((......))).....(((....))) ( -29.00)
>DroEre_CAF1 27230 104 + 1
AUGCCCAUACGCAUAU----GUACAUACUUAUAUGCAUGUGCCCGAGUAUGGUAAUCAAGGCGAACUUAUCAAAGUCAGUCCCACGAAAUUACUACAAGGCACACGCC
..((......((((((----(........))))))).((((((..((((..........(((..((((....))))..))).........))))....)))))).)). ( -24.41)
>DroYak_CAF1 26873 108 + 1
UAACCCAUGAGCAUAUGUAUGUACAUACUCAUAUGCAUAUGCCCGAGUAUGGUAAUCAAGGCGAACUUAUCAAAGUCAGCGCCACGAAAUUGCUACAAGGCACACGCC
....(((((.((((((((((((........)))))))))))).....))))).......((((.((((....))))...))))...............(((....))) ( -29.20)
>consensus
AAACCCAUGAGCAUAUGUA_GUACAUACUUAUAUGCAUAUGCCCGAGUAUGGUAAUCAAGGCGAACUUAUCAAAGUCAGCCCCACGAAAUUGCUACAAGGCACACGCC
.....((((.(((((((............))))))).))))........(((((((...(((..((((....))))..))).......)))))))...(((....))) (-19.19 = -18.87 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 9,444,940 – 9,445,046
Length 106
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 90.09
Mean single sequence MFE -36.53
Consensus MFE -32.24
Energy contribution -33.13
Covariance contribution 0.89
Combinations/Pair 1.06
Mean z-score -3.14
Structure conservation index 0.88
SVM decision value 1.68
SVM RNA-class probability 0.971913
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9444940 106 - 22224390
GGCGUGUGCCUUGUAGCAAUUUCGUGCGGCUGACUUUGAUAAGUUCGCCUUGAUUACCAUACUCGGGCAUAUGCAUAUAAGUAUGUA--UACAUAUGCUCAUGGGUUU
.((((((((((.((((((......)))(((.(((((....))))).)))..........)))..)))))))))).(((.(((((((.--...))))))).)))..... ( -34.10)
>DroEre_CAF1 27230 104 - 1
GGCGUGUGCCUUGUAGUAAUUUCGUGGGACUGACUUUGAUAAGUUCGCCUUGAUUACCAUACUCGGGCACAUGCAUAUAAGUAUGUAC----AUAUGCGUAUGGGCAU
.((((((((((.(((((((((....(((.(.(((((....))))).)))).))))))..)))..))))))))))........(((..(----(((....))))..))) ( -34.20)
>DroYak_CAF1 26873 108 - 1
GGCGUGUGCCUUGUAGCAAUUUCGUGGCGCUGACUUUGAUAAGUUCGCCUUGAUUACCAUACUCGGGCAUAUGCAUAUGAGUAUGUACAUACAUAUGCUCAUGGGUUA
.((((((((((.(((......(((.((((..(((((....))))))))).)))......)))..)))))))))).(((((((((((......)))))))))))..... ( -41.30)
>consensus
GGCGUGUGCCUUGUAGCAAUUUCGUGGGGCUGACUUUGAUAAGUUCGCCUUGAUUACCAUACUCGGGCAUAUGCAUAUAAGUAUGUAC_UACAUAUGCUCAUGGGUUU
.((((((((((.(((......(((...(((.(((((....))))).))).)))......)))..)))))))))).(((((((((((......)))))))))))..... (-32.24 = -33.13 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:37 2006