Locus 6591

Sequence ID X_DroMel_CAF1
Location 16,453,694 – 16,453,794
Length 100
Max. P 0.704321
window10769 window10770

overview

Window 9

Location 16,453,694 – 16,453,794
Length 100
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 85.50
Mean single sequence MFE -29.18
Consensus MFE -21.09
Energy contribution -22.71
Covariance contribution 1.62
Combinations/Pair 1.10
Mean z-score -1.72
Structure conservation index 0.72
SVM decision value 0.36
SVM RNA-class probability 0.704321
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16453694 100 + 22224390
UCAAGUUGAAGUCAGCAAGCCAGUUAAAUUGGAUGGAGG---UUGGAUGGGGGUUUGGCCUGGUGAGUUGUUCCAA-AAUUAAGGCGAAAAGAGCCGAUUGGCC
....((((....))))..(((((((...(((((...(((---(..(((....)))..))))..........)))))-......(((.......)))))))))). ( -28.52)
>DroSec_CAF1 3956 98 + 1
UCAAGUUGAAGUCAGCUAGCCAGUUAAAUUGGCUGGAGUG------CGCGGGGUUUGGCCUGCUGAGUUGUUCCAAAAAUUAAGGCGAAAAGAGCCGAUUGGCC
...(((((....))))).(((((((.((((...((((..(------((((((......)))))...))...))))..))))..(((.......)))))))))). ( -29.30)
>DroSim_CAF1 4522 104 + 1
UCAAGUUGAAGUCAGCUAGCCAGUUAAAUUGGCUGGAGUGGAGUGGAGCGGGGUUUGGCCUGCUGAGUUGUUCCAAAAAUUAAGGCGAAAAGAGCCGAUUGGCC
...(((((....))))).(((((((.((((...(((((..(.....((((((......))))))...)..)))))..))))..(((.......)))))))))). ( -34.60)
>DroEre_CAF1 4360 91 + 1
UCAAGUUGAAGUCAGCAAGCCAGUUAAAUUGGAUGGAGUG-----------GGGUUGGCUUGGUGAGUUGU-UCG-AAAUUAAGGCGAAAAGAGCCGAGUGGCU
...........(((.(((((((..(..(((......))).-----------.)..))))))).)))((..(-((.-.......(((.......))))))..)). ( -24.30)
>consensus
UCAAGUUGAAGUCAGCAAGCCAGUUAAAUUGGAUGGAGUG______AGCGGGGUUUGGCCUGCUGAGUUGUUCCAAAAAUUAAGGCGAAAAGAGCCGAUUGGCC
....((((....))))..(((((((.((((...(((((........((((((......))))))......)))))..))))..(((.......)))))))))). (-21.09 = -22.71 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,453,694 – 16,453,794
Length 100
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 85.50
Mean single sequence MFE -17.47
Consensus MFE -16.06
Energy contribution -16.68
Covariance contribution 0.63
Combinations/Pair 1.13
Mean z-score -1.29
Structure conservation index 0.92
SVM decision value 0.06
SVM RNA-class probability 0.563955
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16453694 100 - 22224390
GGCCAAUCGGCUCUUUUCGCCUUAAUU-UUGGAACAACUCACCAGGCCAAACCCCCAUCCAA---CCUCCAUCCAAUUUAACUGGCUUGCUGACUUCAACUUGA
..((((..(((.......)))......-))))......(((.(((((((.............---.................))))))).)))........... ( -15.41)
>DroSec_CAF1 3956 98 - 1
GGCCAAUCGGCUCUUUUCGCCUUAAUUUUUGGAACAACUCAGCAGGCCAAACCCCGCG------CACUCCAGCCAAUUUAACUGGCUAGCUGACUUCAACUUGA
..((((..(((.......))).......))))......(((((.(((((........(------(......)).........))))).)))))........... ( -20.03)
>DroSim_CAF1 4522 104 - 1
GGCCAAUCGGCUCUUUUCGCCUUAAUUUUUGGAACAACUCAGCAGGCCAAACCCCGCUCCACUCCACUCCAGCCAAUUUAACUGGCUAGCUGACUUCAACUUGA
......((((((.................((((.......(((.((......)).)))....))))....(((((.......)))))))))))........... ( -19.10)
>DroEre_CAF1 4360 91 - 1
AGCCACUCGGCUCUUUUCGCCUUAAUUU-CGA-ACAACUCACCAAGCCAACCC-----------CACUCCAUCCAAUUUAACUGGCUUGCUGACUUCAACUUGA
((((....))))................-.((-(....(((.(((((((....-----------..................))))))).))).)))....... ( -15.35)
>consensus
GGCCAAUCGGCUCUUUUCGCCUUAAUUUUUGGAACAACUCACCAGGCCAAACCCCGCU______CACUCCAGCCAAUUUAACUGGCUAGCUGACUUCAACUUGA
((((....))))..........................(((((((((((.................................)))))))))))........... (-16.06 = -16.68 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:44 2006