Locus 7628

Sequence ID 3R_DroMel_CAF1
Location 20,437,424 – 20,437,517
Length 93
Max. P 0.758243
window12314 window12315

overview

Window 4

Location 20,437,424 – 20,437,517
Length 93
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 85.84
Mean single sequence MFE -25.45
Consensus MFE -20.20
Energy contribution -20.32
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -1.69
Structure conservation index 0.79
SVM decision value 0.44
SVM RNA-class probability 0.736159
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20437424 93 + 27905053
CA-CAAUCCAAACAAUUCCUGGCUGGUGCAACUAUAUUGGGUUGCCUGGCCGGCAAAUUGGCGUUUCGAUUAUCGCAACUUUGUUACAAUAUCU
.(-(((......(((((.(((((..(.((((((......)))))))..)))))..)))))(((..........)))....)))).......... ( -26.90)
>DroSim_CAF1 19590 85 + 1
---------GAACAAUCCCUGGCUGGUGCAACCAUAUUGGGUUGCCUGGCCGGCAAAUUGGCGUUUCGAUUAUCGCAACUUUGUUACAAUAUCU
---------.(((((...(((((..(.((((((......)))))))..))))).......(((..........)))....)))))......... ( -27.40)
>DroEre_CAF1 19528 90 + 1
CAGCAAUC-CAACAAUCC--AGCUGGUGCAACCAUAUUGGUUGGCCUGGCCGGCA-AUCGGCGCUUCGAUUAUCGCAACUUUGUUACGUUAUCU
.(((....-...((..((--(((..(((......)))..)))))..))((((...-..)))))))..(((...((.(((...))).))..))). ( -22.50)
>DroYak_CAF1 20676 91 + 1
GAGCAAUC-CAACAGUUC--AGCUGGUGCAACCAUAUUGGGUUGCCUGGCCGGCAAAUUGGCGCUUCGAUUAUCGCAACUUUGUUACAAUAUCU
.(((((..-...(((((.--.((((((((((((......))))))...)))))).)))))(((.(......).)))....)))))......... ( -25.00)
>consensus
CA_CAAUC_CAACAAUCC__AGCUGGUGCAACCAUAUUGGGUUGCCUGGCCGGCAAAUUGGCGCUUCGAUUAUCGCAACUUUGUUACAAUAUCU
..........(((((......((((((((((((......))))))...))))))......(((..........)))....)))))......... (-20.20 = -20.32 +   0.12)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,437,424 – 20,437,517
Length 93
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 85.84
Mean single sequence MFE -27.08
Consensus MFE -18.48
Energy contribution -19.22
Covariance contribution 0.75
Combinations/Pair 1.15
Mean z-score -1.96
Structure conservation index 0.68
SVM decision value 0.49
SVM RNA-class probability 0.758243
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20437424 93 - 27905053
AGAUAUUGUAACAAAGUUGCGAUAAUCGAAACGCCAAUUUGCCGGCCAGGCAACCCAAUAUAGUUGCACCAGCCAGGAAUUGUUUGGAUUG-UG
.(((((((((((...)))))))).)))......((((....(((((..((((((........))))).)..))).))......))))....-.. ( -23.80)
>DroSim_CAF1 19590 85 - 1
AGAUAUUGUAACAAAGUUGCGAUAAUCGAAACGCCAAUUUGCCGGCCAGGCAACCCAAUAUGGUUGCACCAGCCAGGGAUUGUUC---------
.(((((((((((...)))))))).))).......(((((..(((((..(((((((......)))))).)..))).)))))))...--------- ( -24.90)
>DroEre_CAF1 19528 90 - 1
AGAUAACGUAACAAAGUUGCGAUAAUCGAAGCGCCGAU-UGCCGGCCAGGCCAACCAAUAUGGUUGCACCAGCU--GGAUUGUUG-GAUUGCUG
.(((..((((((...))))))...)))..(((.(((((-..(((((..((.(((((.....)))))..)).)))--))...))))-)...))). ( -30.20)
>DroYak_CAF1 20676 91 - 1
AGAUAUUGUAACAAAGUUGCGAUAAUCGAAGCGCCAAUUUGCCGGCCAGGCAACCCAAUAUGGUUGCACCAGCU--GAACUGUUG-GAUUGCUC
.(((((((((((...)))))))).)))..(((.(((((....((((..(((((((......)))))).)..)))--)....))))-)...))). ( -29.40)
>consensus
AGAUAUUGUAACAAAGUUGCGAUAAUCGAAACGCCAAUUUGCCGGCCAGGCAACCCAAUAUGGUUGCACCAGCC__GAAUUGUUG_GAUUG_UG
.(((((((((((...)))))))).))).......((((((...(((..(((((((......)))))).)..)))..))))))............ (-18.48 = -19.22 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:38 2006