Locus 895

Sequence ID 2R_DroMel_CAF1
Location 4,043,065 – 4,043,223
Length 158
Max. P 0.864990
window1563 window1564

overview

Window 3

Location 4,043,065 – 4,043,183
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.36
Mean single sequence MFE -23.90
Consensus MFE -17.66
Energy contribution -16.90
Covariance contribution -0.76
Combinations/Pair 1.21
Mean z-score -1.83
Structure conservation index 0.74
SVM decision value 0.06
SVM RNA-class probability 0.562347
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4043065 118 - 20766785
AGAAAGGCAGAAAUGAAUAAGCG-AUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGUAUAAUAUAAAUUGGCAA-AUUUCCCGAAACGAACUGAAGCG
.((((.(((....).......((-((..((((((((........(((((....)))))....((((((....))))))))))))))..))))))..-.)))).................. ( -19.00)
>DroSec_CAF1 25740 118 - 1
AGAAAGGCAGA-AUGAAUAAGCGGAUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGUAUAAUAAAAAUUGGCAA-AUUUCCCGAAACGAGCCGAAGCG
.....(((...-........((.(((...(((((((........(((((....)))))....((((((....)))))))))))))...))).))..-......((...)).)))...... ( -22.00)
>DroSim_CAF1 27901 120 - 1
AGAAAGGCAGAAAUGAAUAAGCGGAUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUAUAUAAUAUAAAUUGGCAAAAUUUCCCGAAACGAGCCGAAGCG
.....(((.(((((......((.(((..((((((((........(((((....)))))....((((((....))))))))))))))..))).))...))))).((...)).)))...... ( -25.20)
>DroEre_CAF1 24885 118 - 1
AGAAAGGCGGGAAUGAAUAAGCG-AUGGGUGCUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGCAUAAUAUAAAUUGCCAA-AUUUCCCGAAACGAGCUGAAGCG
.....(.((((((.......(((-((..(((.............(((((....))))).(((((((((....)))))))))..)))..)))))...-..))))))...)..((....)). ( -29.50)
>DroYak_CAF1 28821 118 - 1
AGAAUGGAAGGAAUGAAUAAGCG-AUGGGUGUUGUAAAAAUUAAUGGCUGAAAAGUUAAAUGUAAGUCGUAGGAUUUGCAUAAUAUAAACUGUCAC-AUUUCUCGAAACGAGCUGAAGCG
....................(((-((((...(((((........(((((....))))).(((((((((....)))))))))..))))).)))))..-....((((...)))).....)). ( -23.80)
>consensus
AGAAAGGCAGAAAUGAAUAAGCG_AUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGUAUAAUAUAAAUUGGCAA_AUUUCCCGAAACGAGCUGAAGCG
....................((...(.(((.((((.........(((((....))))).(((((((((....)))))))))..........................))))))).).)). (-17.66 = -16.90 +  -0.76)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,043,104 – 4,043,223
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.48
Mean single sequence MFE -19.32
Consensus MFE -17.08
Energy contribution -16.40
Covariance contribution -0.68
Combinations/Pair 1.17
Mean z-score -1.41
Structure conservation index 0.88
SVM decision value 0.84
SVM RNA-class probability 0.864990
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4043104 119 - 20766785
AUAAUUGCGCGUUCAGAAAAUGAAAAUUCAAAACAAACAAAGAAAGGCAGAAAUGAAUAAGCG-AUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGUA
....((((((.((((.....)))).......((((..((..(.....((....))......).-.))..)))).............)).)))).........((((((....)))))).. ( -19.20)
>DroSec_CAF1 25779 119 - 1
AUAAUUGCGCGUUCAGAAAAUGAAAAUUCAAAACAAACAGAGAAAGGCAGA-AUGAAUAAGCGGAUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGUA
....((((((.((((.....)))).......((((..((..(.....(...-..)......)...))..)))).............)).)))).........((((((....)))))).. ( -16.00)
>DroSim_CAF1 27941 120 - 1
AUAAUUGCGCGUUCAGAAAAUGAAAAUUCAAAACAAACAGAGAAAGGCAGAAAUGAAUAAGCGGAUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUAUA
....((((((.((((.....)))).......((((..((..(.....((....))......)...))..)))).............)).)))).......((((((((....)))))))) ( -21.60)
>DroEre_CAF1 24924 119 - 1
AUAAUUGCGCGUGCAGAAAACGAAAAUUCAAAACAAACAAAGAAAGGCGGGAAUGAAUAAGCG-AUGGGUGCUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGCA
....((((.(((.......)))......................((.((..(((.....((((-.....))))......)))..)).)))))).......((((((((....)))))))) ( -21.60)
>DroYak_CAF1 28860 119 - 1
AUAAUUGCGCGUUCAGAAAAUGAAAACUCAAAACAAAGACAGAAUGGAAGGAAUGAAUAAGCG-AUGGGUGUUGUAAAAAUUAAUGGCUGAAAAGUUAAAUGUAAGUCGUAGGAUUUGCA
...(((((..(((((.....(((....))).........(.....).......)))))..)))-))..................(((((....)))))..((((((((....)))))))) ( -18.20)
>consensus
AUAAUUGCGCGUUCAGAAAAUGAAAAUUCAAAACAAACAAAGAAAGGCAGAAAUGAAUAAGCG_AUGGGUGUUGUAAAAAUUAAUGGCUGCAAAGUUAAAUGUAAAUCGAAGGAUUUGUA
....(((((((..((.....((...(((((.......................)))))...))..))..))).)))).......(((((....)))))..((((((((....)))))))) (-17.08 = -16.40 +  -0.68)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:23 2006