Locus 5912

Sequence ID X_DroMel_CAF1
Location 15,238,280 – 15,238,393
Length 113
Max. P 0.922002
window9595 window9596

overview

Window 5

Location 15,238,280 – 15,238,393
Length 113
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.39
Mean single sequence MFE -27.91
Consensus MFE -22.07
Energy contribution -22.23
Covariance contribution 0.17
Combinations/Pair 1.04
Mean z-score -1.66
Structure conservation index 0.79
SVM decision value 0.38
SVM RNA-class probability 0.712884
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15238280 113 + 22224390
GUGCGUACAUAUAU-CUGCGGAUGACCCCAUUGUUGUUU-UUGGGGUCAGCUG-AACCAUUUGUGGACUUUCGAUUUAAUAUAAAUUGAGAAUGAGCUUGUUAGUUUUGGCGCUUG
((((((.((((...-...(((.((((((((..(....).-.)))))))).)))-.......)))).))((((((((((...))))))))))..(((((....)))))..))))... ( -32.82)
>DroPse_CAF1 64687 88 + 1
GUGCGU-----------GUGGGUGACCCCAUUGUUGUU--UUGGGGUCAGCUG-AACCAUUUGUGGACUUUCGAUUUAAUAUAAAUUGGGAAUGAGCUU--------------UUC
..((((-----------..((.((((((((........--.)))))))).)).-..(((....)))))(..(((((((...)))))))..)....))..--------------... ( -25.10)
>DroSec_CAF1 58600 109 + 1
GUGCGU----AUAU-CUGUGGAUGACCCCAUUGUUGUUU-UUGGGGUCAGCUG-AACCAUUUGUGAACUUUCGAUUUAAUAUAAAUUGAGAAUGAGCUUGUUAGUUUUGGCGCUUG
((((((----.(((-..((((.((((((((..(....).-.))))))))....-..))))..))).))((((((((((...))))))))))..(((((....)))))..))))... ( -30.80)
>DroYak_CAF1 59364 109 + 1
GUGCGU----AUAU-CUGCGGAUGACCCCAUUGUUGUUU-UUGGGGUCAGCUG-AACCAUUUGUGGACUUUCGAUUUAAUAUAAAUUGCGAAUGAGCUUGUUAGUUUUGGCGCUUG
..((((----....-((((((.((((((((..(....).-.)))))))).)))-...((((((..(...................)..)))))).......))).....))))... ( -28.21)
>DroAna_CAF1 59484 100 + 1
-UGCGU----GUAUGCUG----UGACCCCAUUGUUGUUUUUUGGGGUCAGCUGGAGCCAUUUGUGGACUUUCGAUUUAAUAUAAAUUGAGAAUGAGCUUGUUAGUUUUG-------
-.(((.----...)))..----((((((((..(.....)..))))))))(((((((((((((........((((((((...))))))))))))).))))..))))....------- ( -25.40)
>DroPer_CAF1 66400 88 + 1
GUGCGU-----------GUGGGUGACCCCAUUGUUGUU--UUGGGGUCAGCUG-AACCAUUUGUGGACUUUCGAUUUAAUAUAAAUUGGGAAUGAGCUU--------------UUC
..((((-----------..((.((((((((........--.)))))))).)).-..(((....)))))(..(((((((...)))))))..)....))..--------------... ( -25.10)
>consensus
GUGCGU____AUAU_CUGUGGAUGACCCCAUUGUUGUUU_UUGGGGUCAGCUG_AACCAUUUGUGGACUUUCGAUUUAAUAUAAAUUGAGAAUGAGCUUGUUAGUUUUG____UUG
......................((((((((...........))))))))(((....(((....)))..((((((((((...))))))))))...)))................... (-22.07 = -22.23 +   0.17)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,238,280 – 15,238,393
Length 113
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 82.39
Mean single sequence MFE -18.88
Consensus MFE -16.04
Energy contribution -15.90
Covariance contribution -0.14
Combinations/Pair 1.07
Mean z-score -2.27
Structure conservation index 0.85
SVM decision value 1.14
SVM RNA-class probability 0.922002
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15238280 113 - 22224390
CAAGCGCCAAAACUAACAAGCUCAUUCUCAAUUUAUAUUAAAUCGAAAGUCCACAAAUGGUU-CAGCUGACCCCAA-AAACAACAAUGGGGUCAUCCGCAG-AUAUAUGUACGCAC
...(((............((((.....................(....).(((....)))..-.))))(((((((.-.........)))))))....(((.-.....))).))).. ( -20.80)
>DroPse_CAF1 64687 88 - 1
GAA--------------AAGCUCAUUCCCAAUUUAUAUUAAAUCGAAAGUCCACAAAUGGUU-CAGCUGACCCCAA--AACAACAAUGGGGUCACCCAC-----------ACGCAC
...--------------.((((.....................(....).(((....)))..-.))))(((((((.--........)))))))......-----------...... ( -16.50)
>DroSec_CAF1 58600 109 - 1
CAAGCGCCAAAACUAACAAGCUCAUUCUCAAUUUAUAUUAAAUCGAAAGUUCACAAAUGGUU-CAGCUGACCCCAA-AAACAACAAUGGGGUCAUCCACAG-AUAU----ACGCAC
...((((...(((((........(((.((.(((((...))))).)).))).......)))))-..))((((((((.-.........)))))))).......-....----..)).. ( -18.26)
>DroYak_CAF1 59364 109 - 1
CAAGCGCCAAAACUAACAAGCUCAUUCGCAAUUUAUAUUAAAUCGAAAGUCCACAAAUGGUU-CAGCUGACCCCAA-AAACAACAAUGGGGUCAUCCGCAG-AUAU----ACGCAC
...(((.............((......))....((((((.....(((...(((....)))))-).((((((((((.-.........))))))))...)).)-))))----)))).. ( -23.10)
>DroAna_CAF1 59484 100 - 1
-------CAAAACUAACAAGCUCAUUCUCAAUUUAUAUUAAAUCGAAAGUCCACAAAUGGCUCCAGCUGACCCCAAAAAACAACAAUGGGGUCA----CAGCAUAC----ACGCA-
-------............((..........................((.(((....)))))...((((((((((...........))))))).----.)))....----..)).- ( -18.10)
>DroPer_CAF1 66400 88 - 1
GAA--------------AAGCUCAUUCCCAAUUUAUAUUAAAUCGAAAGUCCACAAAUGGUU-CAGCUGACCCCAA--AACAACAAUGGGGUCACCCAC-----------ACGCAC
...--------------.((((.....................(....).(((....)))..-.))))(((((((.--........)))))))......-----------...... ( -16.50)
>consensus
CAA____CAAAACUAACAAGCUCAUUCUCAAUUUAUAUUAAAUCGAAAGUCCACAAAUGGUU_CAGCUGACCCCAA_AAACAACAAUGGGGUCAUCCACAG_AUAU____ACGCAC
..................((((.....................(....).(((....)))....))))(((((((...........)))))))....................... (-16.04 = -15.90 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:27 2006