Locus 8384

Sequence ID X_DroMel_CAF1
Location 20,811,741 – 20,811,875
Length 134
Max. P 0.664235
window13770 window13771 window13772

overview

Window 0

Location 20,811,741 – 20,811,835
Length 94
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 84.57
Mean single sequence MFE -28.40
Consensus MFE -22.40
Energy contribution -22.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.79
SVM decision value 0.02
SVM RNA-class probability 0.544505
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20811741 94 + 22224390
--------------------------GUGUGGGACCACAUGUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGG
--------------------------.(((((..(((...(((....)))....)))))))).((((((((((((((((.....)))))))..))))))))).(((((.....)).))). ( -22.40)
>DroEre_CAF1 3800 120 + 1
GUGGGGGGAUGGGAGGGGGGUGUGGGGUGUGGGACCACAUGUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGG
((((.((((..(((((.(.((((((.........)))))).).)))))...))))..))))..((((((((((((((((.....)))))))..))))))))).(((((.....)).))). ( -38.10)
>DroYak_CAF1 8042 97 + 1
GUG-----------------------GUGUGGGACCACAUGUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGG
(((-----------------------((..((((....(((......)))))))..)))))..((((((((((((((((.....)))))))..))))))))).(((((.....)).))). ( -24.70)
>consensus
GUG_______________________GUGUGGGACCACAUGUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGG
...........................(((((..(((...(((....)))....)))))))).((((((((((((((((.....)))))))..))))))))).(((((.....)).))). (-22.40 = -22.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,811,741 – 20,811,835
Length 94
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.57
Mean single sequence MFE -14.60
Consensus MFE -14.30
Energy contribution -14.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.16
Structure conservation index 0.98
SVM decision value 0.28
SVM RNA-class probability 0.664235
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20811741 94 - 22224390
CCGUUGCUUGUUACACGUCUAAUCUGUUAAAUCCUGUUUACCAAGAUUACAAAUCAAUUGUGGCCAGGAAAUAAAAACACAUGUGGUCCCACAC--------------------------
..(((..((((((((.(......))))....(((((..(((...(((.....)))....)))..)))))))))).)))...((((....)))).-------------------------- ( -14.30)
>DroEre_CAF1 3800 120 - 1
CCGUUGCUUGUUACACGUCUAAUCUGUUAAAUCCUGUUUACCAAGAUUACAAAUCAAUUGUGGCCAGGAAAUAAAAACACAUGUGGUCCCACACCCCACACCCCCCUCCCAUCCCCCCAC
..(((..((((((((.(......))))....(((((..(((...(((.....)))....)))..)))))))))).)))...(((((.........))))).................... ( -14.90)
>DroYak_CAF1 8042 97 - 1
CCGUUGCUUGUUACACGUCUAAUCUGUUAAAUCCUGUUUACCAAGAUUACAAAUCAAUUGUGGCCAGGAAAUAAAAACACAUGUGGUCCCACAC-----------------------CAC
..(((..((((((((.(......))))....(((((..(((...(((.....)))....)))..)))))))))).)))....(((((.....))-----------------------))) ( -14.60)
>consensus
CCGUUGCUUGUUACACGUCUAAUCUGUUAAAUCCUGUUUACCAAGAUUACAAAUCAAUUGUGGCCAGGAAAUAAAAACACAUGUGGUCCCACAC_______________________CAC
..(((..((((((((.(......))))....(((((..(((...(((.....)))....)))..)))))))))).)))...((((....))))........................... (-14.30 = -14.30 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,811,755 – 20,811,875
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.08
Mean single sequence MFE -27.09
Consensus MFE -25.83
Energy contribution -26.16
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.95
SVM decision value 0.10
SVM RNA-class probability 0.582641
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20811755 120 + 22224390
GUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGGGCGACCGAUAAUCGCACACACACGCACACCAUCAACAAAA
((((..(((((...(.(((....((((((((((((((((.....)))))))..))))))))).(((((.....)).)))))).)..)))))..))))....................... ( -27.60)
>DroEre_CAF1 3840 117 + 1
GUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGGGCGACCGAUAAUCGCAUACACACGCACACCACC---AAAA
((((...................((((((((((((((((.....)))))))..)))))))))..(((((........(((....))).........)))))..))))......---.... ( -26.33)
>DroYak_CAF1 8059 117 + 1
GUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGGGCAACCGAUAAUCGCAUACACACGCACACCACC---AAAC
((((...................((((((((((((((((.....)))))))..)))))))))..(((((........(((....))).........)))))..))))......---.... ( -27.33)
>consensus
GUGUUUUUAUUUCCUGGCCACAAUUGAUUUGUAAUCUUGGUAAACAGGAUUUAACAGAUUAGACGUGUAACAAGCAACGGGCGACCGAUAAUCGCAUACACACGCACACCACC___AAAA
((((...................((((((((((((((((.....)))))))..)))))))))..(((((........(((....))).........)))))..))))............. (-25.83 = -26.16 +   0.33)

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 13:02:40 2006