Locus 2240

Sequence ID X_DroMel_CAF1
Location 6,051,182 – 6,051,382
Length 200
Max. P 0.777471
window3628 window3629

overview

Window 8

Location 6,051,182 – 6,051,278
Length 96
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 75.63
Mean single sequence MFE -14.53
Consensus MFE -9.20
Energy contribution -10.20
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.63
SVM decision value 0.55
SVM RNA-class probability 0.777471
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6051182 96 + 22224390
UGGCUUGCAAACUGGCUGUCUGAUUAAUCACAAACGCUUAAAU-CCGGCCAAUACAACAGGCAACAAACAACCGACAAUACACAGCACACAACACAC
..(((((.....((((((...((((...............)))-)))))))......)))))................................... ( -13.16)
>DroSec_CAF1 63166 78 + 1
UGGCUGGCAAACUGGCUGUCUGAUUAAUCACAAACGCUUAAACGCCGGCAAAUACAACAGGCAACAAACAA----CAAUACA---------------
..((((((.....(((.((.((........)).))))).....))))))..........(....)......----.......--------------- ( -16.20)
>DroSim_CAF1 59084 78 + 1
UGGCUGGCAAACUGGCUGUCUGAUUAAUCACAAACGCUUAAACGCCGGCAAAUACAACAGGCAACAAACAA----CAAUACA---------------
..((((((.....(((.((.((........)).))))).....))))))..........(....)......----.......--------------- ( -16.20)
>DroYak_CAF1 61203 81 + 1
UGGCUGGCAAACUGGCUGUCUGAUUAAUCACAAACGCUUAAAU-CCGAC-------------AACAAACAACCGACAACACACU--AAGCCACACAC
((((((((......)))(((.((((...............)))-).)))-------------......................--.)))))..... ( -12.56)
>consensus
UGGCUGGCAAACUGGCUGUCUGAUUAAUCACAAACGCUUAAAC_CCGGCAAAUACAACAGGCAACAAACAA____CAAUACA_______________
..((((((.....(((.((.((........)).))))).....))))))................................................ ( -9.20 = -10.20 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 6,051,278 – 6,051,382
Length 104
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 88.04
Mean single sequence MFE -17.89
Consensus MFE -16.17
Energy contribution -16.84
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.90
SVM decision value 0.53
SVM RNA-class probability 0.771184
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6051278 104 + 22224390
AACACACACAGACACACAACAAGCCACAAAAACCAGUGACGAAUUAUUACGCAUACGCACUCGGAAAAUGAACUGUACGAGUGUG-UGCACACACACACAUGUGA
..((((.((((...........(.(((........))).)..........((....))..............))))....(((((-((....))))))).)))). ( -20.90)
>DroSec_CAF1 63244 91 + 1
--------CACACACACAACAAGCCACAAAAACGAGUGACGAAUUAUUACGCAUACGCACUCGGAAAAUGAACUGUACGAGUGUGAUGCACACACA------UGA
--------..............(.(((........))).)..........((((.((((((((..............)))))))))))).......------... ( -19.54)
>DroSim_CAF1 59162 91 + 1
--------CACACACACAACAAGCCACAAAAACCAGUGACGAAUUAUUACGCAUACGCACUCGGAAAAUGAACUGUACGAGUAUGAUGCACACACA------UGA
--------..............(.(((........))).)..........((((.((.(((((..............))))).)))))).......------... ( -13.24)
>consensus
________CACACACACAACAAGCCACAAAAACCAGUGACGAAUUAUUACGCAUACGCACUCGGAAAAUGAACUGUACGAGUGUGAUGCACACACA______UGA
......................(.(((........))).)..........((((.((((((((..............))))))))))))................ (-16.17 = -16.84 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:31 2006