Locus 7135

Sequence ID 3L_DroMel_CAF1
Location 19,181,379 – 19,181,508
Length 129
Max. P 0.981509
window11585 window11586

overview

Window 5

Location 19,181,379 – 19,181,480
Length 101
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 97.36
Mean single sequence MFE -17.68
Consensus MFE -15.58
Energy contribution -16.18
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.88
SVM decision value 0.41
SVM RNA-class probability 0.726896
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19181379 101 - 23771897
AAACAGCCGAACA--CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUAAUGCAAAAGUUUGUUGUUGCUAUA
...((((((....--...............))))))...(((((.(((((((((((.....)))..(((((((......))).)))))))))))))))))... ( -19.11)
>DroSec_CAF1 9914 103 - 1
AAACAGCCGAACACACAAAUACAAUCUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUAAUGCAAAAGUUUGUUGUUGCUAUA
...((((((.....................))))))...(((((.(((((((((((.....)))..(((((((......))).)))))))))))))))))... ( -19.00)
>DroSim_CAF1 13034 103 - 1
AAACAGCCGAACACACAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUAAUGCAAAAGUUUGUUGUUGCUAUA
...((((((.....................))))))...(((((.(((((((((((.....)))..(((((((......))).)))))))))))))))))... ( -19.00)
>DroEre_CAF1 12649 101 - 1
AAACACCCGAACA--CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUAAUGCAAAAGUUUGUUGUUGCUAUA
.............--..............(((((.((((((..(....)...))))))(((((((.(((((((......))).)))).)))))))..))))). ( -14.70)
>DroYak_CAF1 33546 101 - 1
AAACAACCGAACA--CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUAAUGCAAAAGUUUGCUGUUGCUAUA
.............--..............(((((.(((((((..(((.....((((.....))))((((.....))))..)))....)))))))...))))). ( -16.60)
>consensus
AAACAGCCGAACA__CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUAAUGCAAAAGUUUGUUGUUGCUAUA
...((((((.....................))))))...(((((.(((((((((((.....)))..(((((((......))).)))))))))))))))))... (-15.58 = -16.18 +   0.60)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,181,403 – 19,181,508
Length 105
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 97.07
Mean single sequence MFE -17.42
Consensus MFE -15.16
Energy contribution -15.76
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.87
SVM decision value 1.89
SVM RNA-class probability 0.981509
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19181403 105 - 23771897
CCCCUCCAAUUUUGCUUACAUUUAAGCAAAACAGCCGAACA--CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUA
.(((.....(((((((((....)))))))))((((((....--...............))))))......))).......((((.....)))).............. ( -19.11)
>DroSec_CAF1 9938 106 - 1
CC-CUCCGAUUUUGCUUACAUUUAAGCAAAACAGCCGAACACACAAAUACAAUCUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUA
..-.((((.(((((((((....)))))))))((((((.....................)))))).....)))).......((((.....)))).............. ( -18.80)
>DroSim_CAF1 13058 106 - 1
CC-CUCCGAUUUUGCUUACAUUUAAGCAAAACAGCCGAACACACAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUA
..-.((((.(((((((((....)))))))))((((((.....................)))))).....)))).......((((.....)))).............. ( -18.80)
>DroEre_CAF1 12673 104 - 1
CC-CUCCGAUUUUGCUUACAUUUAAGCAAAACACCCGAACA--CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUA
((-(...(.(((((((((....)))))))))).........--.................(((....)))))).......((((.....)))).............. ( -15.20)
>DroYak_CAF1 33570 104 - 1
CC-CUCCGAUUUUGCUUACAUUUAAGCAAAACAACCGAACA--CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUA
((-(...(.(((((((((....)))))))))).........--.................(((....)))))).......((((.....)))).............. ( -15.20)
>consensus
CC_CUCCGAUUUUGCUUACAUUUAAGCAAAACAGCCGAACA__CAAAUACAAACUCCAUGGCUGGCAAGCGGGCAACAAAUUUGUUUAACAAAAUUUUCAUAAAAUA
....((((.(((((((((....)))))))))((((((.....................)))))).....)))).......((((.....)))).............. (-15.16 = -15.76 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:57 2006