Locus 3922

Sequence ID 2L_DroMel_CAF1
Location 11,441,796 – 11,441,889
Length 93
Max. P 0.846526
window6184 window6185

overview

Window 4

Location 11,441,796 – 11,441,889
Length 93
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 85.64
Mean single sequence MFE -32.40
Consensus MFE -21.66
Energy contribution -22.70
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.43
Structure conservation index 0.67
SVM decision value 0.77
SVM RNA-class probability 0.846526
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11441796 93 + 22407834
UGUUGCCCUGUAAAGACAGGGAGAUAUUGCUCCUCGUCUGAGGCCAUUGCCUUAGCCCCCGAUU------CGAAUUCGAUUUCGAU------GUGGAUUUGGAUU
(((..((((((....))))))..)))....(((..(.(((((((....))))))))..(((..(------((((......))))).------.)))....))).. ( -30.10)
>DroSec_CAF1 5585 93 + 1
UGUUGCCCUGUAAAGACAGGGAGAUAUUGCUCCUCGUCUGAGGCCAUUGCCUUAGCCCCCGAUU------CGAAUUCGAUUUGGAU------GUGGAUUUGGAUU
(((..((((((....))))))..)))....(((.((((((((((....)))))))...((((.(------((....))).))))))------).)))........ ( -31.60)
>DroSim_CAF1 5780 93 + 1
UGUUGCCCUGUAAAGACAGGGAGAUAUUGCUCCUCGUCUGAGGCCAUUGCCUUAGUCCCCGAUU------CGAAUUCGAUUUGGAU------GUGGAUUUGAAUU
(((..((((((....))))))..)))....(((.((((((((((....)))))))...((((.(------((....))).))))))------).)))........ ( -31.80)
>DroEre_CAF1 5561 105 + 1
UGUCGCCCUGUUAAGACAGGGAGAUAUUGCUCCUCGUCUGAGGCCAAUGCCUUAGCCCCCGAUUCAAAUACGAAUUCGAUUUGGAUGUGGAUGUGGAUUUGGAUU
((((.((((((....)))))).))))....(((.((((((((((....)))))))...(((((((((((.((....)))))))))).)))))).)))........ ( -36.20)
>DroYak_CAF1 5696 88 + 1
UGUUGCCCUGUAAAGACAGGGAGAUAUUGCUCCUCGUCGGAGGCCAUUGCCUU-----CGGAUUUCGAUCCGAAUUCGAUUUGG------------AUUUGGGUU
(((..((((((....))))))..)))..........((((((((....)))))-----))).....(((((((((((.....))------------))))))))) ( -32.30)
>consensus
UGUUGCCCUGUAAAGACAGGGAGAUAUUGCUCCUCGUCUGAGGCCAUUGCCUUAGCCCCCGAUU______CGAAUUCGAUUUGGAU______GUGGAUUUGGAUU
((((.((((((....)))))).)))).......(((.(((((((....)))))))....)))........((((((((...............)))))))).... (-21.66 = -22.70 +   1.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 11,441,796 – 11,441,889
Length 93
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 85.64
Mean single sequence MFE -25.48
Consensus MFE -16.60
Energy contribution -17.24
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -1.99
Structure conservation index 0.65
SVM decision value 0.13
SVM RNA-class probability 0.600054
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11441796 93 - 22407834
AAUCCAAAUCCAC------AUCGAAAUCGAAUUCG------AAUCGGGGGCUAAGGCAAUGGCCUCAGACGAGGAGCAAUAUCUCCCUGUCUUUACAGGGCAACA
........(((..------.(((....)))..(((------..((.(((((((......))))))).)))))))).........((((((....))))))..... ( -25.70)
>DroSec_CAF1 5585 93 - 1
AAUCCAAAUCCAC------AUCCAAAUCGAAUUCG------AAUCGGGGGCUAAGGCAAUGGCCUCAGACGAGGAGCAAUAUCUCCCUGUCUUUACAGGGCAACA
.............------.(((...(((....))------).((.(((((((......))))))).))...))).........((((((....))))))..... ( -24.00)
>DroSim_CAF1 5780 93 - 1
AAUUCAAAUCCAC------AUCCAAAUCGAAUUCG------AAUCGGGGACUAAGGCAAUGGCCUCAGACGAGGAGCAAUAUCUCCCUGUCUUUACAGGGCAACA
........(((..------.(((...(((....))------)....))).((.((((....)))).))....))).........((((((....))))))..... ( -22.50)
>DroEre_CAF1 5561 105 - 1
AAUCCAAAUCCACAUCCACAUCCAAAUCGAAUUCGUAUUUGAAUCGGGGGCUAAGGCAUUGGCCUCAGACGAGGAGCAAUAUCUCCCUGUCUUAACAGGGCGACA
..............(((.....(((((((....)).)))))..((.((((((((....)))))))).))...)))......((.((((((....)))))).)).. ( -29.90)
>DroYak_CAF1 5696 88 - 1
AACCCAAAU------------CCAAAUCGAAUUCGGAUCGAAAUCCG-----AAGGCAAUGGCCUCCGACGAGGAGCAAUAUCUCCCUGUCUUUACAGGGCAACA
..(((....------------..........(((((((....)))))-----))(((....)))...((((.((((......)))).))))......)))..... ( -25.30)
>consensus
AAUCCAAAUCCAC______AUCCAAAUCGAAUUCG______AAUCGGGGGCUAAGGCAAUGGCCUCAGACGAGGAGCAAUAUCUCCCUGUCUUUACAGGGCAACA
..(((......................((....))........(((....((.((((....)))).)).)))))).........((((((....))))))..... (-16.60 = -17.24 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:51 2006