Locus 4159

Sequence ID X_DroMel_CAF1
Location 10,910,003 – 10,910,095
Length 92
Max. P 0.930861
window6830 window6831

overview

Window 0

Location 10,910,003 – 10,910,095
Length 92
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 76.23
Mean single sequence MFE -20.93
Consensus MFE -16.33
Energy contribution -16.00
Covariance contribution -0.33
Combinations/Pair 1.20
Mean z-score -1.35
Structure conservation index 0.78
SVM decision value 1.10
SVM RNA-class probability 0.914552
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10910003 92 + 22224390
AAACGAACUGGCUGAAUGAAGUGUUUGACAACACUUUAACUUGAUUAAAAAUUUAAUAGCCAGCAGGGCAAACAUUGUGCGAAUGG-----AU--GGAU
.......(((((((..(((((((((....)))))))))..((((........))))))))))).....((..((((.....)))).-----.)--)... ( -20.30)
>DroPse_CAF1 23306 86 + 1
CAGCGAACUGGCUGAAUGGAGUGUUUGACAACACUUUAACUUAAUUAAAAAUUUAACAGCCGUUAGGGGAUGCAUUGUGGG----------AU--GCG-
.....(((.(((((..(((((((((....)))))))))..((((........)))))))))))).......(((((....)----------))--)).- ( -20.60)
>DroYak_CAF1 8652 94 + 1
GUACGAACUGGCUGAAUGAAGUGUUUGACAACACUUUAACUUGAUUAAAAAUUUAAUAGCCAGCAGGGCAAACAUUGUGCGAAUGG-----GCUGAGGA
((((((.(((((((..(((((((((....)))))))))..((((........)))))))))))..(......).))))))......-----........ ( -22.60)
>DroMoj_CAF1 11867 77 + 1
-GUCUGACGGGCUGAAUGAAGUGUUUGGCAACACUUUAACUUGAUUAAAAAUUUAAUAGCCAGCAGGAUAAACAUUUG---------------------
-.((((...(((((..(((((((((....)))))))))..((((........)))))))))..))))...........--------------------- ( -18.60)
>DroAna_CAF1 9073 95 + 1
G--GGAACUGGCUGAAUGAAGUGUUUGACAACACUUUAACUUGAUUAAAAAUUUAAUAGCCAGCAGGGCAAACAUUGUACCAUUGCUGGGGGC--GUAA
.--.......(((...(((((((((....))))))))).....................(((((((.(((.....)))....))))))).)))--.... ( -22.90)
>DroPer_CAF1 17058 86 + 1
CAGCGAACUGGCUGAAUGGAGUGUUUGACAACACUUUAACUUAAUUAAAAAUUUAACAGCCGUUAGGGGAUGCAUUGUGGG----------AU--GCG-
.....(((.(((((..(((((((((....)))))))))..((((........)))))))))))).......(((((....)----------))--)).- ( -20.60)
>consensus
CAACGAACUGGCUGAAUGAAGUGUUUGACAACACUUUAACUUGAUUAAAAAUUUAAUAGCCAGCAGGGCAAACAUUGUGCG__________AU__GCG_
.......(((((((..(((((((((....)))))))))..((((........))))))))))).................................... (-16.33 = -16.00 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,910,003 – 10,910,095
Length 92
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.23
Mean single sequence MFE -17.57
Consensus MFE -10.92
Energy contribution -11.25
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.62
SVM decision value 1.21
SVM RNA-class probability 0.930861
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10910003 92 - 22224390
AUCC--AU-----CCAUUCGCACAAUGUUUGCCCUGCUGGCUAUUAAAUUUUUAAUCAAGUUAAAGUGUUGUCAAACACUUCAUUCAGCCAGUUCGUUU
...(--(.-----.((((.....))))..))....(((((((....(((((......))))).(((((((....))))))).....)))))))...... ( -17.90)
>DroPse_CAF1 23306 86 - 1
-CGC--AU----------CCCACAAUGCAUCCCCUAACGGCUGUUAAAUUUUUAAUUAAGUUAAAGUGUUGUCAAACACUCCAUUCAGCCAGUUCGCUG
-.((--((----------......))))..........(((((...(((((......)))))..((((((....)))))).....)))))......... ( -17.30)
>DroYak_CAF1 8652 94 - 1
UCCUCAGC-----CCAUUCGCACAAUGUUUGCCCUGCUGGCUAUUAAAUUUUUAAUCAAGUUAAAGUGUUGUCAAACACUUCAUUCAGCCAGUUCGUAC
......((-----......))........(((...(((((((....(((((......))))).(((((((....))))))).....)))))))..))). ( -18.70)
>DroMoj_CAF1 11867 77 - 1
---------------------CAAAUGUUUAUCCUGCUGGCUAUUAAAUUUUUAAUCAAGUUAAAGUGUUGCCAAACACUUCAUUCAGCCCGUCAGAC-
---------------------............((((.((((....(((((......))))).(((((((....))))))).....)))).).)))..- ( -14.60)
>DroAna_CAF1 9073 95 - 1
UUAC--GCCCCCAGCAAUGGUACAAUGUUUGCCCUGCUGGCUAUUAAAUUUUUAAUCAAGUUAAAGUGUUGUCAAACACUUCAUUCAGCCAGUUCC--C
....--....(((....)))...............(((((((....(((((......))))).(((((((....))))))).....)))))))...--. ( -19.60)
>DroPer_CAF1 17058 86 - 1
-CGC--AU----------CCCACAAUGCAUCCCCUAACGGCUGUUAAAUUUUUAAUUAAGUUAAAGUGUUGUCAAACACUCCAUUCAGCCAGUUCGCUG
-.((--((----------......))))..........(((((...(((((......)))))..((((((....)))))).....)))))......... ( -17.30)
>consensus
_CCC__AU__________CGCACAAUGUUUGCCCUGCUGGCUAUUAAAUUUUUAAUCAAGUUAAAGUGUUGUCAAACACUUCAUUCAGCCAGUUCGCUC
......................................((((....(((((......))))).(((((((....))))))).....))))......... (-10.92 = -11.25 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:51 2006