Locus 8315

Sequence ID X_DroMel_CAF1
Location 20,664,681 – 20,664,789
Length 108
Max. P 0.965408
window13656 window13657

overview

Window 6

Location 20,664,681 – 20,664,789
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.89
Mean single sequence MFE -33.00
Consensus MFE -29.13
Energy contribution -29.17
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.77
Structure conservation index 0.88
SVM decision value 1.58
SVM RNA-class probability 0.965408
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20664681 108 + 22224390
------AGCAGUGAGUGAGACAACCCAUUGUGGGCCACAUUUCAUUUGGAGUGUUGUUUGUGAAAUACUUCGCCCUCUCUUUCGUGGGCCUACUUCCCU------CUCCCUCUGACCAUC
------......(((.((((.........((((((((((((((....))))))).....(((((....))))).............))))))).....)------))).)))........ ( -27.74)
>DroSec_CAF1 66324 108 + 1
------AGCAGAGAGUGAGACAACCCAUUGUGGGCCACAUUUCAUUUGGAGUGUUGUUUGUGAAAUACUUCGCCCUCUCUUUCGUGGGCCUACUUCCCU------CUCCCUCUGACCACC
------..(((((.(.((((.........((((((((((((((....))))))).....(((((....))))).............))))))).....)------)))))))))...... ( -31.54)
>DroSim_CAF1 43783 108 + 1
------AGCAGAGAGUGAGACAACCCAUUGUGGGCCACAUUUCAUUUGGAGUGUUGUUUGUGAAAUACUUCGCCAUCUCUUUCGUGGGCCUACUUCCCU------CUCCCUCUGACCACC
------..(((((.(.((((.........((((((((((((((....))))))).....(((((....))))).............))))))).....)------)))))))))...... ( -31.54)
>DroEre_CAF1 61991 114 + 1
------AGCAGAGAGUGAGGAAAACCAUUGUGGGCCACAUUUCAUUUGGAGUGUAGUUUGUGAAAUAUUUCGCCCUCUUUUUCGUGGGCCUAUCUCCCUCUCACUCUCCCUCUGACCGCC
------....(((((((((((((....(..(..((.(((((((....))))))).))..)..)....))))((((.(......).))))..........)))))))))............ ( -36.00)
>DroYak_CAF1 63305 114 + 1
GCAGAGAGCAGAGAGUGAGGAAAGCCAUUGUGGGCCACAUUUCAUUUGGAGUGUAGAUUGUGAAAUAUUUCGCCCUCUCUUUCGUGGGCCUACUUCCCU------CUCCCUCUGACCAGC
.(((((.(..(((((.((((....))...((((((((((((((....)))))))(((..(((((....)))))..)))........))))))).)).))------)))))))))...... ( -38.20)
>consensus
______AGCAGAGAGUGAGACAACCCAUUGUGGGCCACAUUUCAUUUGGAGUGUUGUUUGUGAAAUACUUCGCCCUCUCUUUCGUGGGCCUACUUCCCU______CUCCCUCUGACCACC
........(((((.(.(((..........((((((((((((((....))))))).....(((((....))))).............)))))))............)))))))))...... (-29.13 = -29.17 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,664,681 – 20,664,789
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.89
Mean single sequence MFE -34.10
Consensus MFE -26.97
Energy contribution -27.21
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -1.63
Structure conservation index 0.79
SVM decision value 0.45
SVM RNA-class probability 0.740438
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20664681 108 - 22224390
GAUGGUCAGAGGGAG------AGGGAAGUAGGCCCACGAAAGAGAGGGCGAAGUAUUUCACAAACAACACUCCAAAUGAAAUGUGGCCCACAAUGGGUUGUCUCACUCACUGCU------
...((.(((...(((------.((((....(((((((....)...((((.(..(((((((................)))))))).))))....)))))).)))).))).)))))------ ( -30.79)
>DroSec_CAF1 66324 108 - 1
GGUGGUCAGAGGGAG------AGGGAAGUAGGCCCACGAAAGAGAGGGCGAAGUAUUUCACAAACAACACUCCAAAUGAAAUGUGGCCCACAAUGGGUUGUCUCACUCUCUGCU------
...((.(((((((.(------(((((.((..((((.(....)...))))(((....))).........))))).........(..((((.....))))..)))).)))))))))------ ( -34.10)
>DroSim_CAF1 43783 108 - 1
GGUGGUCAGAGGGAG------AGGGAAGUAGGCCCACGAAAGAGAUGGCGAAGUAUUUCACAAACAACACUCCAAAUGAAAUGUGGCCCACAAUGGGUUGUCUCACUCUCUGCU------
...((.(((((((.(------(((((.((..(((..(....)....)))(((....))).........))))).........(..((((.....))))..)))).)))))))))------ ( -30.50)
>DroEre_CAF1 61991 114 - 1
GGCGGUCAGAGGGAGAGUGAGAGGGAGAUAGGCCCACGAAAAAGAGGGCGAAAUAUUUCACAAACUACACUCCAAAUGAAAUGUGGCCCACAAUGGUUUUCCUCACUCUCUGCU------
...((.(((((((.(((.(((((((((.(((((((.(......).))))(((....))).....)))..))))........((((...))))....)))))))).)))))))))------ ( -34.80)
>DroYak_CAF1 63305 114 - 1
GCUGGUCAGAGGGAG------AGGGAAGUAGGCCCACGAAAGAGAGGGCGAAAUAUUUCACAAUCUACACUCCAAAUGAAAUGUGGCCCACAAUGGCUUUCCUCACUCUCUGCUCUCUGC
((.(..(((((((.(------((((((((.......(....)...((((...((((((((................)))))))).))))......))))))))).)))))))..)...)) ( -40.29)
>consensus
GGUGGUCAGAGGGAG______AGGGAAGUAGGCCCACGAAAGAGAGGGCGAAGUAUUUCACAAACAACACUCCAAAUGAAAUGUGGCCCACAAUGGGUUGUCUCACUCUCUGCU______
...((.(((((((((........(((((((.((((.(......).))))....)))))).)........))))...(((...(..((((.....))))..).)))..)))))))...... (-26.97 = -27.21 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:58 2006