Locus 1769

Sequence ID X_DroMel_CAF1
Location 4,885,309 – 4,885,432
Length 123
Max. P 0.873089
window2894 window2895

overview

Window 4

Location 4,885,309 – 4,885,400
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 96.28
Mean single sequence MFE -21.32
Consensus MFE -20.06
Energy contribution -20.00
Covariance contribution -0.06
Combinations/Pair 1.08
Mean z-score -1.71
Structure conservation index 0.94
SVM decision value 0.52
SVM RNA-class probability 0.768077
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4885309 91 + 22224390
CACUCAACGAGUGAGUGGAGUAGCUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGAUCGAUAUUCGUUUGUUUGU
(((((...)))))((((((........))))))............(((..((..(((...((((((....))))))...)))..))..))) ( -22.10)
>DroSim_CAF1 37559 88 + 1
CACUCAACGAGUGAGUGGA---GCUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGAUCAAAAUUCGUUUGUUUGU
(((((...)))))((((((---.....))))))............(((..((..((..((((((((....))))))))..))..))..))) ( -24.60)
>DroEre_CAF1 39486 88 + 1
CACUCAACGAGUGAGUGGA---GCUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGGUCGAUAUUCGUUUGUUUGU
(((((...)))))((((((---.....))))))............(((..((..(((...(((..(....)..)))...)))..))..))) ( -20.90)
>DroYak_CAF1 37363 88 + 1
CACUCAACGAGUGAGUGGA---GCUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGUUCGAUAUUCGUUUGUUUGU
(((((...)))))((((((---.....))))))............(((..((..(((...((((........))))...)))..))..))) ( -17.70)
>consensus
CACUCAACGAGUGAGUGGA___GCUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGAUCGAUAUUCGUUUGUUUGU
(((((...)))))((((((........))))))............(((..((..(((...((((((....))))))...)))..))..))) (-20.06 = -20.00 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,885,332 – 4,885,432
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.80
Mean single sequence MFE -27.06
Consensus MFE -16.26
Energy contribution -16.34
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -2.61
Structure conservation index 0.60
SVM decision value 0.88
SVM RNA-class probability 0.873089
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4885332 100 + 22224390
CUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGAUCGAU------------AUUCGUUUGUUUGUUUGUAUUGCGUGAGCUUAGUGGCCAAAGGCUU--------
.(((.(((((((....(((..((((..((..(((...((((((....)))))).------------..)))..))..)))))))...((....))))))))).)))......-------- ( -27.90)
>DroSim_CAF1 37579 100 + 1
CUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGAUCAAA------------AUUCGUUUGUUUGUUUGUGUUGCGUGAGCUUAGUGGCCAAAGGCUU--------
.(((.(((((((...(((((.((((..((..((..((((((((....)))))))------------)..))..))..)))).)))))((....))))))))).)))......-------- ( -34.40)
>DroEre_CAF1 39506 100 + 1
CUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGGUCGAU------------AUUCGUUUGUUUGUUUGUAUUGCGUGAGCUUAGUGGCCAAAGGCUU--------
.(((.(((((((....(((..((((..((..(((...(((..(....)..))).------------..)))..))..)))))))...((....))))))))).)))......-------- ( -26.70)
>DroYak_CAF1 37383 108 + 1
CUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGUUCGAU------------AUUCGUUUGUUUGUUUGUAUUGCGUGAGCUUAGUGGCCAAAGGCUUAGUGGCCA
.(((.(((((((....(((..((((..((..(((...((((........)))).------------..)))..))..)))))))...((....))))))))).))).((((....)))). ( -29.40)
>DroAna_CAF1 94984 101 + 1
CUUGUCCAGUAAAUUAGCAUUAACAUUCAUUUGGUUU--------CAGACCGAUUCGUUUCGUUUCGUUUAUUUGUUUGUUUGUAUUGCGUGAGCUUAGUGGCCCAAAC-----------
.(((.(((.(((....(((..((((..((...((((.--------..))))((..((...))..)).......))..)))))))...((....))))).)))..)))..----------- ( -16.90)
>consensus
CUUGUCCACUAAAUUAGCAUUAACAUUCAUUUGGUUUUUGGUCUUCAGAUCGAU____________AUUCGUUUGUUUGUUUGUAUUGCGUGAGCUUAGUGGCCAAAGGCUU________
.(((.(((((((.((((((..((((..((..(((..................................)))..))..)))).....))).)))..))))))).))).............. (-16.26 = -16.34 +   0.08)

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 10:18:31 2006