Locus 3403

Sequence ID 3L_DroMel_CAF1
Location 9,984,069 – 9,984,183
Length 114
Max. P 0.923749
window5321 window5322

overview

Window 1

Location 9,984,069 – 9,984,183
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 90.51
Mean single sequence MFE -28.92
Consensus MFE -24.08
Energy contribution -24.00
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -2.31
Structure conservation index 0.83
SVM decision value 0.83
SVM RNA-class probability 0.860330
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9984069 114 + 23771897
GAACUCAUAAAAAGUAAUUUGGUCAUAAUGCUU-UGGCCGAGU-UAGUUACUUAAUUUGCAGUUGCAAAUAAAGUUUCGCUUUAUUAAUUUUGAUGUCGAGUGCUGUUGUAGUUCU-
(((((.((((.((.(((((((((((........-)))))))))-)).))((((.((((((....)))))).))))..((((((((((....)))))..)))))...))))))))).- ( -29.70)
>DroVir_CAF1 38434 112 + 1
GAACUCAUAAAAAGUAAUUUGGCCAUAAUGCUU-UGGCUGAGU-UAGUUACUUGAUUUGCAGUUGCGAAUAAAGUUUCGCUUUAUUAAUUUUGAUGUUGAAUGUUGCU---UUUUCU
(((........((.(((((..((((........-))))..)))-)).))((((.((((((....)))))).)))))))((..(((((((......)))).)))..)).---...... ( -25.10)
>DroPse_CAF1 40162 114 + 1
GAACUCAUAAAAAGUAAUUUGGCCAUAAUGCUUUUGGCCGAGU-UAGUUACUUAAUUUGCAGUUGCAAAUAAAGUUUCGCUUUAUUAAUUUUGAUGUCGAGUGCCGG-GCUGCUAU-
...........((.(((((((((((.........)))))))))-)).)).........((((((((((((((((.....)))))))...((((....)))))))..)-)))))...- ( -29.80)
>DroWil_CAF1 57882 115 + 1
GAACUCAUAAAAAGUAAUUUGGCCAUAAUGCUU-UGGCCGAGUUUAGUUACUUAAUUUGCAGUUGCAAAUAAAGUUUCGCUUUAUUAAUUUUCAUGCUGAGUAUUGUUGUUGUUGU-
..(((((((((((((((((((((((........-))))))))))..(..((((.((((((....)))))).))))..)))))).)))..........)))))..............- ( -27.70)
>DroAna_CAF1 35972 114 + 1
GAACUCAUAAAAAGUAAUUUGGCCAUAAUGCUU-UGGCCGAGU-UAGUUACUUAAUUUGCAGUUGCAAAUAAAGUUUCGCUUUAUUAAUUUUGAUGUCGAGUGCUGUUGUGCUUCU-
((..(((.......(((((((((((........-)))))))))-))(..((((.((((((....)))))).))))..).............)))..))(((..(....)..)))..- ( -31.40)
>DroPer_CAF1 39832 114 + 1
GAACUCAUAAAAAGUAAUUUGGCCAUAAUGCUUUUGGCCGAGU-UAGUUACUUAAUUUGCAGUUGCAAAUAAAGUUUCGCUUUAUUAAUUUUGAUGUCGAGUGCCGG-GCUGCUAU-
...........((.(((((((((((.........)))))))))-)).)).........((((((((((((((((.....)))))))...((((....)))))))..)-)))))...- ( -29.80)
>consensus
GAACUCAUAAAAAGUAAUUUGGCCAUAAUGCUU_UGGCCGAGU_UAGUUACUUAAUUUGCAGUUGCAAAUAAAGUUUCGCUUUAUUAAUUUUGAUGUCGAGUGCUGUUGUUGUUAU_
..((((....(((((.(((((((((.........)))))))))...(..((((.((((((....)))))).))))..))))))((((....))))...))))............... (-24.08 = -24.00 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 9,984,069 – 9,984,183
Length 114
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 90.51
Mean single sequence MFE -19.97
Consensus MFE -17.43
Energy contribution -17.57
Covariance contribution 0.14
Combinations/Pair 1.10
Mean z-score -2.00
Structure conservation index 0.87
SVM decision value 1.16
SVM RNA-class probability 0.923749
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9984069 114 - 23771897
-AGAACUACAACAGCACUCGACAUCAAAAUUAAUAAAGCGAAACUUUAUUUGCAACUGCAAAUUAAGUAACUA-ACUCGGCCA-AAGCAUUAUGACCAAAUUACUUUUUAUGAGUUC
-.(((((.((................................((((.((((((....)))))).)))).....-....((.((-........)).)).............))))))) ( -14.70)
>DroVir_CAF1 38434 112 - 1
AGAAAA---AGCAACAUUCAACAUCAAAAUUAAUAAAGCGAAACUUUAUUCGCAACUGCAAAUCAAGUAACUA-ACUCAGCCA-AAGCAUUAUGGCCAAAUUACUUUUUAUGAGUUC
......---............................(((((......))))).(((........)))....(-(((((((((-........)))).(((......))).)))))). ( -14.50)
>DroPse_CAF1 40162 114 - 1
-AUAGCAGC-CCGGCACUCGACAUCAAAAUUAAUAAAGCGAAACUUUAUUUGCAACUGCAAAUUAAGUAACUA-ACUCGGCCAAAAGCAUUAUGGCCAAAUUACUUUUUAUGAGUUC
-...((...-...))(((((......................((((.((((((....)))))).)))).....-....(((((.........))))).............))))).. ( -21.80)
>DroWil_CAF1 57882 115 - 1
-ACAACAACAACAAUACUCAGCAUGAAAAUUAAUAAAGCGAAACUUUAUUUGCAACUGCAAAUUAAGUAACUAAACUCGGCCA-AAGCAUUAUGGCCAAAUUACUUUUUAUGAGUUC
-....................((((((((.((((........((((.((((((....)))))).))))..........(((((-........)))))..)))).))))))))..... ( -24.30)
>DroAna_CAF1 35972 114 - 1
-AGAAGCACAACAGCACUCGACAUCAAAAUUAAUAAAGCGAAACUUUAUUUGCAACUGCAAAUUAAGUAACUA-ACUCGGCCA-AAGCAUUAUGGCCAAAUUACUUUUUAUGAGUUC
-....((......))(((((......................((((.((((((....)))))).)))).....-....(((((-........))))).............))))).. ( -22.70)
>DroPer_CAF1 39832 114 - 1
-AUAGCAGC-CCGGCACUCGACAUCAAAAUUAAUAAAGCGAAACUUUAUUUGCAACUGCAAAUUAAGUAACUA-ACUCGGCCAAAAGCAUUAUGGCCAAAUUACUUUUUAUGAGUUC
-...((...-...))(((((......................((((.((((((....)))))).)))).....-....(((((.........))))).............))))).. ( -21.80)
>consensus
_AGAACAACAACAGCACUCGACAUCAAAAUUAAUAAAGCGAAACUUUAUUUGCAACUGCAAAUUAAGUAACUA_ACUCGGCCA_AAGCAUUAUGGCCAAAUUACUUUUUAUGAGUUC
...............(((((......................((((.((((((....)))))).))))..........(((((.........))))).............))))).. (-17.43 = -17.57 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:20 2006