Locus 5669

Sequence ID 3L_DroMel_CAF1
Location 15,558,129 – 15,558,241
Length 112
Max. P 0.954011
window8963 window8964

overview

Window 3

Location 15,558,129 – 15,558,241
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.71
Mean single sequence MFE -30.57
Consensus MFE -24.98
Energy contribution -27.03
Covariance contribution 2.06
Combinations/Pair 1.03
Mean z-score -1.97
Structure conservation index 0.82
SVM decision value 0.06
SVM RNA-class probability 0.564136
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15558129 112 + 23771897
CGUGUGUGUAAACUUUUCAAACCUGUACAAUUAUAUACACAUUUAUUGUAAUUGUUGUUGCUGCUGCUGCUUUGGCUACUUUUGUUUAUUUACUUUUUGGGGGAAGGCGCAA--------
.((((((((((......((....)).....)))))))))).......(((((....)))))...(((.(((((..((......((......))......))..)))))))).-------- ( -20.10)
>DroSec_CAF1 20725 119 + 1
CGUGUGUGUAAACUUUUCAAACCUGUACAAUUAUAUACACAUUUAUUGUAAUUGUUGUUGCUGCUGCUGCGAUGGCUACUUUUGUUUAUUUACUUUUUGG-GGAAGGCGCAACAGCAGCA
.((((((((((......((....)).....))))))))))..................((((((((.((((....(..(....((......)).....).-.)....)))).)))))))) ( -30.80)
>DroSim_CAF1 21172 120 + 1
CGUGUGUGUAAACUUUUCAAACCUGUACAAUUAUAUACACAUUUAUUGUAAUUGUUGUUGCUGCUGCUGCGUUGGCUACUUUUGUUUAUUUACUUUUUGGGGGAAGGCGCAACAGCAGCA
.((((((((((......((....)).....))))))))))..................((((((((.((((((..(..((...((......)).....))..)..)))))).)))))))) ( -35.20)
>DroEre_CAF1 20842 120 + 1
CGUGUGUGUAAACUUUUCAAACCUGUACAAUUAUAUACACAUUUGUUGUAAUUGUUGUUGCUGCUGCGGCGUUGGCUACUUUUGUUUAUUUACUUUUUGGGGGAAGGCGCAACAGCAGCA
.((((((((((......((....)).....))))))))))..................((((((((..(((((..(..((...((......)).....))..)..)))))..)))))))) ( -34.90)
>DroYak_CAF1 40891 119 + 1
CGUGUGUGUAAACUUUUCAAACCUGUACAAUUAUAUACACAUUUAUUGUAAUUGUUGUUGCUGCUGCUGCGUUGGCUACUUUUGUUUAUUUACUUUUUGG-GGAAGGCGCAACAGCAGCA
.((((((((((......((....)).....))))))))))..................((((((((.((((((..(..(....((......)).....).-.)..)))))).)))))))) ( -34.20)
>DroAna_CAF1 22419 116 + 1
GGUGUGUGUAAACUUUUCAAACUUGUACAAUUAUAUACACAUUUAUUGUAAUUGU---UGCUGCUGUUUCGCUGGCUCCUUUUGUUUAUUUACUUUUUGG-GGCAGGCGCACCAACAACA
.((((((((((......((....)).....))))))))))...........((((---((.(((......(((.(((((....((......)).....))-))).)))))).)))))).. ( -28.20)
>consensus
CGUGUGUGUAAACUUUUCAAACCUGUACAAUUAUAUACACAUUUAUUGUAAUUGUUGUUGCUGCUGCUGCGUUGGCUACUUUUGUUUAUUUACUUUUUGG_GGAAGGCGCAACAGCAGCA
.((((((((((......((....)).....))))))))))...................(((((((.((((((..((.((...((......)).....)).))..)))))).))))))). (-24.98 = -27.03 +   2.06)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,558,129 – 15,558,241
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.71
Mean single sequence MFE -27.05
Consensus MFE -22.16
Energy contribution -23.80
Covariance contribution 1.64
Combinations/Pair 1.12
Mean z-score -3.00
Structure conservation index 0.82
SVM decision value 1.44
SVM RNA-class probability 0.954011
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15558129 112 - 23771897
--------UUGCGCCUUCCCCCAAAAAGUAAAUAAACAAAAGUAGCCAAAGCAGCAGCAGCAACAACAAUUACAAUAAAUGUGUAUAUAAUUGUACAGGUUUGAAAAGUUUACACACACG
--------...................((((((........(((((....)).((....)).........)))..(((((.((((((....)))))).)))))....))))))....... ( -16.40)
>DroSec_CAF1 20725 119 - 1
UGCUGCUGUUGCGCCUUCC-CCAAAAAGUAAAUAAACAAAAGUAGCCAUCGCAGCAGCAGCAACAACAAUUACAAUAAAUGUGUAUAUAAUUGUACAGGUUUGAAAAGUUUACACACACG
(((((((((((((......-.......((......))............))))))))))))).............(((((.((((((....)))))).)))))................. ( -30.61)
>DroSim_CAF1 21172 120 - 1
UGCUGCUGUUGCGCCUUCCCCCAAAAAGUAAAUAAACAAAAGUAGCCAACGCAGCAGCAGCAACAACAAUUACAAUAAAUGUGUAUAUAAUUGUACAGGUUUGAAAAGUUUACACACACG
(((((((((((((.(((........))).......((....))......))))))))))))).............(((((.((((((....)))))).)))))................. ( -30.70)
>DroEre_CAF1 20842 120 - 1
UGCUGCUGUUGCGCCUUCCCCCAAAAAGUAAAUAAACAAAAGUAGCCAACGCCGCAGCAGCAACAACAAUUACAACAAAUGUGUAUAUAAUUGUACAGGUUUGAAAAGUUUACACACACG
(((((((((.(((.(((........))).......((....))......))).))))))))).............(((((.((((((....)))))).)))))................. ( -29.00)
>DroYak_CAF1 40891 119 - 1
UGCUGCUGUUGCGCCUUCC-CCAAAAAGUAAAUAAACAAAAGUAGCCAACGCAGCAGCAGCAACAACAAUUACAAUAAAUGUGUAUAUAAUUGUACAGGUUUGAAAAGUUUACACACACG
(((((((((((((......-.......((......))............))))))))))))).............(((((.((((((....)))))).)))))................. ( -30.61)
>DroAna_CAF1 22419 116 - 1
UGUUGUUGGUGCGCCUGCC-CCAAAAAGUAAAUAAACAAAAGGAGCCAGCGAAACAGCAGCA---ACAAUUACAAUAAAUGUGUAUAUAAUUGUACAAGUUUGAAAAGUUUACACACACC
((((((((...(((..((.-((.....((......))....)).))..)))...))))))))---..........(((((.((((((....)))))).)))))................. ( -25.00)
>consensus
UGCUGCUGUUGCGCCUUCC_CCAAAAAGUAAAUAAACAAAAGUAGCCAACGCAGCAGCAGCAACAACAAUUACAAUAAAUGUGUAUAUAAUUGUACAGGUUUGAAAAGUUUACACACACG
(((((((((((((....................................))))))))))))).............(((((.((((((....)))))).)))))................. (-22.16 = -23.80 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:09 2006