Locus 3046

Sequence ID 2L_DroMel_CAF1
Location 8,698,040 – 8,698,133
Length 93
Max. P 0.999469
window4849 window4850

overview

Window 9

Location 8,698,040 – 8,698,133
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 88.80
Mean single sequence MFE -26.94
Consensus MFE -22.77
Energy contribution -22.89
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -3.18
Structure conservation index 0.85
SVM decision value 3.63
SVM RNA-class probability 0.999469
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8698040 93 + 22407834
GAUAGAUAUCAUCAGAGAUAAAAUCCAUAUCGCGAGUGGGGCAACGAAUGAAUUACAGUGCAAUUGUUUGUUUAGCCCCACAAAUCGCGAAUC
......((((......)))).........(((((((((((((((((((..(............)..))))))..)))))))...))))))... ( -28.50)
>DroSec_CAF1 10655 89 + 1
UAUAGAUAUUGUCAGAGAUAAAAUCCAUAUCGCGAGUGGGGCAACGA----AUUACAGUGCAAUUGUUUGUUAAGCCCCACAAAUCGCGAAUC
(((.(((.(((((...))))).))).)))((((((((((((((((((----((............)))))))..)))))))...))))))... ( -29.60)
>DroSim_CAF1 11423 89 + 1
GAUAGAUAUUGUCAGAGAUAAAACCCAUAUCGCGAGUGGGGCAACGA----AUUACAGUGCAAUUGUUUGUUUAGCCCCACAAAUCGCGAAUC
(((((...)))))................((((((((((((((((((----((............)))))))..)))))))...))))))... ( -27.30)
>DroEre_CAF1 11301 85 + 1
GA----UAUAGUUCAUGAUAAAGCCCAUAUCGGGAAUGGGGCAACGA----AUUACAGUGCAACUGUUUGUUUAGCCCCACAAAUCGCGAAUC
..----....((((.((((....(((.....)))..(((((((((((----...((((.....)))))))))..))))))...)))).)))). ( -24.80)
>DroYak_CAF1 10859 85 + 1
GA----UAUAGUCAGAGAUAAAACCCAUAUCGUGAGUGGGGCAACGA----AUUACAGUGCAAUUGUUUGUUUAGCCCCACAAAUCGCGAAUC
..----.......................((((((((((((((((((----((............)))))))..)))))))...))))))... ( -24.50)
>consensus
GAUAGAUAUAGUCAGAGAUAAAACCCAUAUCGCGAGUGGGGCAACGA____AUUACAGUGCAAUUGUUUGUUUAGCCCCACAAAUCGCGAAUC
.............................((((((((((((((((((.......(((((...))))))))))..)))))))...))))))... (-22.77 = -22.89 +   0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,698,040 – 8,698,133
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 88.80
Mean single sequence MFE -25.24
Consensus MFE -21.27
Energy contribution -21.35
Covariance contribution 0.08
Combinations/Pair 1.11
Mean z-score -2.73
Structure conservation index 0.84
SVM decision value 3.02
SVM RNA-class probability 0.998144
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8698040 93 - 22407834
GAUUCGCGAUUUGUGGGGCUAAACAAACAAUUGCACUGUAAUUCAUUCGUUGCCCCACUCGCGAUAUGGAUUUUAUCUCUGAUGAUAUCUAUC
...((((((...(((((((.........((((((...))))))........))))))))))))).((((((.(((((...))))).)))))). ( -30.43)
>DroSec_CAF1 10655 89 - 1
GAUUCGCGAUUUGUGGGGCUUAACAAACAAUUGCACUGUAAU----UCGUUGCCCCACUCGCGAUAUGGAUUUUAUCUCUGACAAUAUCUAUA
...((((((...(((((((......(((((((((...)))))----).))))))))))))))))(((((((.((.((...)).)).))))))) ( -27.60)
>DroSim_CAF1 11423 89 - 1
GAUUCGCGAUUUGUGGGGCUAAACAAACAAUUGCACUGUAAU----UCGUUGCCCCACUCGCGAUAUGGGUUUUAUCUCUGACAAUAUCUAUC
.....((((...(((((((......(((((((((...)))))----).))))))))))))))(((((..(((........))).))))).... ( -26.20)
>DroEre_CAF1 11301 85 - 1
GAUUCGCGAUUUGUGGGGCUAAACAAACAGUUGCACUGUAAU----UCGUUGCCCCAUUCCCGAUAUGGGCUUUAUCAUGAACUAUA----UC
..((((.(((..(((((((.......((((.....))))...----.....))))))).(((.....)))....))).)))).....----.. ( -21.06)
>DroYak_CAF1 10859 85 - 1
GAUUCGCGAUUUGUGGGGCUAAACAAACAAUUGCACUGUAAU----UCGUUGCCCCACUCACGAUAUGGGUUUUAUCUCUGACUAUA----UC
............(((((((......(((((((((...)))))----).))))))))))....(((((((.............)))))----)) ( -20.92)
>consensus
GAUUCGCGAUUUGUGGGGCUAAACAAACAAUUGCACUGUAAU____UCGUUGCCCCACUCGCGAUAUGGGUUUUAUCUCUGACAAUAUCUAUC
...((((((...(((((((..........(((((...))))).........)))))))))))))............................. (-21.27 = -21.35 +   0.08)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:02 2006