Locus 7565

Sequence ID 2L_DroMel_CAF1
Location 20,942,984 – 20,943,258
Length 274
Max. P 0.969784
window12165 window12166 window12167

overview

Window 5

Location 20,942,984 – 20,943,104
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -37.83
Consensus MFE -36.70
Energy contribution -36.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.70
Structure conservation index 0.97
SVM decision value 1.65
SVM RNA-class probability 0.969784
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20942984 120 + 22407834
UCGUUUUGGCGUUGGUGGCUAACACAAAUUAAUGUCACGGCAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUU
..((.(((((.......))))).))......(((((.(((((..((.(((...((((((...(((((((((((....)))))))))))...)))))).))).))))))))))))...... ( -38.40)
>DroSec_CAF1 29214 120 + 1
UCGUUUUGGCGUUGGUGGCUAACAAAAAUUAAUGUCACGGCAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUU
......(((((((((...)))))........(((((.(((((..((.(((...((((((...(((((((((((....)))))))))))...)))))).))).)))))))))))))))).. ( -36.70)
>DroSim_CAF1 26297 120 + 1
UCGUUUUGGCGUUGGUGGCUAACACAAAUUAAUGUCACGGCAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUU
..((.(((((.......))))).))......(((((.(((((..((.(((...((((((...(((((((((((....)))))))))))...)))))).))).))))))))))))...... ( -38.40)
>consensus
UCGUUUUGGCGUUGGUGGCUAACACAAAUUAAUGUCACGGCAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUU
......(((((((((...)))))........(((((.(((((..((.(((...((((((...(((((((((((....)))))))))))...)))))).))).)))))))))))))))).. (-36.70 = -36.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,943,024 – 20,943,144
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -33.30
Consensus MFE -33.30
Energy contribution -33.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 1.00
SVM decision value 0.20
SVM RNA-class probability 0.631161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20943024 120 + 22407834
CAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUUACCAUUGUUGCUCCUCGGCGAUUGCUGUUCUUGUUGUAAU
..((((((((...((((((...(((((((((((....)))))))))))...)))))).)))(((((.....))))).....)))))(((((..(.((((....)))).....)..))))) ( -33.30)
>DroSec_CAF1 29254 120 + 1
CAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUUACCAUUGUUGCUCCUCGGCGAUUGCUGUUCUUGUUGUAAU
..((((((((...((((((...(((((((((((....)))))))))))...)))))).)))(((((.....))))).....)))))(((((..(.((((....)))).....)..))))) ( -33.30)
>DroSim_CAF1 26337 120 + 1
CAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUUACCAUUGUUGCUCCUCGGCGAUUGCUGUUCUUGUUGUAAU
..((((((((...((((((...(((((((((((....)))))))))))...)))))).)))(((((.....))))).....)))))(((((..(.((((....)))).....)..))))) ( -33.30)
>consensus
CAGGUGGGUGAAAGGCGGAUACCAAUUAAAAAACAUAUUUUUUAAUUGCAUUUCGCUGCACGCAUGUCGGGCAUGUUAUUACCAUUGUUGCUCCUCGGCGAUUGCUGUUCUUGUUGUAAU
..((((((((...((((((...(((((((((((....)))))))))))...)))))).)))(((((.....))))).....)))))(((((..(.((((....)))).....)..))))) (-33.30 = -33.30 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,943,144 – 20,943,258
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -28.27
Consensus MFE -28.09
Energy contribution -27.87
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.33
Structure conservation index 0.99
SVM decision value -0.03
SVM RNA-class probability 0.518823
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20943144 114 + 22407834
UGGUUUAUUGACAGAAUGUGGAAAAGCAGGCCAAUAUGUAUGCACUUGCAUAUUUAUUAUACACUCAUGUGCCCAACAAUGGUGUGCUCAUUGUGUUUCAUGGAUUUUUCGUUU------
.(((((((.((((.((((......((((.(((((((.((((((....)))))).))))...(((....))).........))).)))))))).))))..)))))))........------ ( -27.70)
>DroSec_CAF1 29374 120 + 1
UGAUUUAUUGACAGAAUGUGGAAAAGCAGGCCAAUAUGUAUGCACUUGCAUAUUUAUUAUACACUCAUGUGCCCAACAAUGGUGUGCUCAUUGUGUUUCAUGGAUUUUUCGUUUUUUCGA
.(((((((.((((.((((......((((.(((((((.((((((....)))))).))))...(((....))).........))).)))))))).))))..)))))))..(((......))) ( -28.80)
>DroSim_CAF1 26457 120 + 1
UGGUUUAUUGACAGAAUGUGGAAAAGCAGGCCAAUAUGUAUGCACUUGCAUAUUUAUUAUACACUCAUGUGCCCAACAAUGGUGUGCUCAUUGUGUUUCAUGGAUUUUUCGUUUUUUCGA
.(((((((.((((.((((......((((.(((((((.((((((....)))))).))))...(((....))).........))).)))))))).))))..)))))))..(((......))) ( -28.30)
>consensus
UGGUUUAUUGACAGAAUGUGGAAAAGCAGGCCAAUAUGUAUGCACUUGCAUAUUUAUUAUACACUCAUGUGCCCAACAAUGGUGUGCUCAUUGUGUUUCAUGGAUUUUUCGUUUUUUCGA
.(((((((.((((.((((......((((.(((((((.((((((....)))))).))))...(((....))).........))).)))))))).))))..))))))).............. (-28.09 = -27.87 +  -0.22)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:03 2006