Locus 1368

Sequence ID 3L_DroMel_CAF1
Location 3,982,334 – 3,982,425
Length 91
Max. P 0.911326
window2127 window2128

overview

Window 7

Location 3,982,334 – 3,982,425
Length 91
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 87.69
Mean single sequence MFE -15.15
Consensus MFE -12.27
Energy contribution -12.60
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 0.81
SVM decision value 0.70
SVM RNA-class probability 0.825984
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3982334 91 + 23771897
UCCCCAAUCACCAAUCC---CAGUUAGCUUCCAUCAAAGCCAACAAAGCAAAUGCGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
.................---..(((.((((......)))).)))...(((((((......))))...((((....)))).)))........... ( -13.90)
>DroSec_CAF1 54645 91 + 1
UCCCCAAUCGCCAAUCC---CAGUUAGCUUCCAUCAAAGCCAACAAAGCAAAUGCGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
.................---..(((.((((......)))).)))...(((((((......))))...((((....)))).)))........... ( -13.90)
>DroSim_CAF1 58172 91 + 1
UACCCAAUCGCCAAUCC---CAGUUAGCUUCCAUCAAAGCCAACAAAGCAAAUGCGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
.................---..(((.((((......)))).)))...(((((((......))))...((((....)))).)))........... ( -13.90)
>DroEre_CAF1 56232 84 + 1
UACCAA-------AUCC---GAGUUAGCUUCCAUCAAAGCCAACAAAGCAAAUGCGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
......-------....---..(((.((((......)))).)))...(((((((......))))...((((....)))).)))........... ( -13.90)
>DroYak_CAF1 58280 84 + 1
AACCAA-------UGCC---AACUUAGCUUCCAUCAAAGCCAACAAAGCAAAUGCGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
......-------....---......((((......)))).......(((((((......))))...((((....)))).)))........... ( -11.00)
>DroAna_CAF1 58302 94 + 1
GCAUCAAUGGGCGGUGGCAGGAGUUAACUUCCAUCAAAGCCAACAAAGCAAAUGUGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
.........(((..(((..((((....))))..)))..)))......((((((((....)))))...((((....)))).)))........... ( -24.30)
>consensus
UACCCAAUCGCCAAUCC___CAGUUAGCUUCCAUCAAAGCCAACAAAGCAAAUGCGAAAACAUUAAAGCCAUUUUUGGCCUGCAACACAAACAC
......................(((.((((......)))).)))...(((((((......))))...((((....)))).)))........... (-12.27 = -12.60 +   0.33)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,982,334 – 3,982,425
Length 91
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 87.69
Mean single sequence MFE -24.10
Consensus MFE -21.71
Energy contribution -21.60
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -1.83
Structure conservation index 0.90
SVM decision value 1.08
SVM RNA-class probability 0.911326
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3982334 91 - 23771897
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCGCAUUUGCUUUGUUGGCUUUGAUGGAAGCUAACUG---GGAUUGGUGAUUGGGGA
......(..(((.((((((....)))))))))..)..((((.....((..(((((((((....)))))))))..---))....))))....... ( -23.90)
>DroSec_CAF1 54645 91 - 1
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCGCAUUUGCUUUGUUGGCUUUGAUGGAAGCUAACUG---GGAUUGGCGAUUGGGGA
......(..(((.((((((....)))))))))..)..((((.....((..(((((((((....)))))))))..---))....))))....... ( -25.80)
>DroSim_CAF1 58172 91 - 1
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCGCAUUUGCUUUGUUGGCUUUGAUGGAAGCUAACUG---GGAUUGGCGAUUGGGUA
......(..(((.((((((....)))))))))..)..((((.....((..(((((((((....)))))))))..---))....))))....... ( -25.80)
>DroEre_CAF1 56232 84 - 1
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCGCAUUUGCUUUGUUGGCUUUGAUGGAAGCUAACUC---GGAU-------UUGGUA
(((...(..(((.((((((....)))))))))..)...))).....((..(((((((((....)))))))))..---))..-------...... ( -22.80)
>DroYak_CAF1 58280 84 - 1
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCGCAUUUGCUUUGUUGGCUUUGAUGGAAGCUAAGUU---GGCA-------UUGGUU
(((...(..(((.((((((....)))))))))..)...)))...((((...((((((((....))))))))...---))))-------...... ( -23.60)
>DroAna_CAF1 58302 94 - 1
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCACAUUUGCUUUGUUGGCUUUGAUGGAAGUUAACUCCUGCCACCGCCCAUUGAUGC
(((..((.((.(((((........(((...(((((....))))).)))..(((((((((....))))))))).))))).))))..)))...... ( -22.70)
>consensus
GUGUUUGUGUUGCAGGCCAAAAAUGGCUUUAAUGUUUUCGCAUUUGCUUUGUUGGCUUUGAUGGAAGCUAACUG___GGAUUGGCGAUUGGGGA
(((..((((..((((((((....)))))....)))...))))..)))...(((((((((....)))))))))...................... (-21.71 = -21.60 +  -0.11)

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 10:05:46 2006