Locus 8673

Sequence ID 3L_DroMel_CAF1
Location 22,504,614 – 22,504,705
Length 91
Max. P 0.814830
window14213 window14214

overview

Window 3

Location 22,504,614 – 22,504,705
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 89.56
Mean single sequence MFE -29.72
Consensus MFE -23.98
Energy contribution -24.60
Covariance contribution 0.62
Combinations/Pair 1.09
Mean z-score -1.40
Structure conservation index 0.81
SVM decision value -0.01
SVM RNA-class probability 0.530196
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22504614 91 + 23771897
AAAUCGCGGUCUAACUGCUUAUCCUCGCGGAGAAGAAGCCUGCGGCUUCCUGUUUUAUAAGGGAGAUGCGAUUUACUCGCAGUUGGCCACG
....((.((.((((((((...(((....)))((..(((..((((.((((((........)))))).)))).)))..)))))))))))).)) ( -30.80)
>DroSec_CAF1 12746 91 + 1
AAUUCGCGGUCUAACUGCUUAUCCUCGCGGAGAAGAAGCCUGCGGCUUCCUGUUUUAUAUGGGAGAUGCGAUUUACUCGCAGUUGGCCACG
....((.((.((((((((.((((((((..((((.((((((...))))))...))))...)))).)))).((.....)))))))))))).)) ( -29.50)
>DroSim_CAF1 13050 91 + 1
AAUUCGCGGUCUAACUGCUUAUCCUCGCGGAGAAGAAGCCUGCGGCUUCCUGUUUUAUAAGGGAGAUGCGAUUUACUCGCAGUUGGCCACG
....((.((.((((((((...(((....)))((..(((..((((.((((((........)))))).)))).)))..)))))))))))).)) ( -30.80)
>DroEre_CAF1 14953 83 + 1
AAUUCGCGGUCUGACUGCUCCUCCGCGC--------AGCCUGCGGCUUUCUGUUUUAUUAGGGAGAUGCGAUUAACUCGCAGUUGGGCUCG
....((.((((..(((((....(((((.--------....)))))((..(((......)))..)).............)))))..)))))) ( -27.80)
>consensus
AAUUCGCGGUCUAACUGCUUAUCCUCGCGGAGAAGAAGCCUGCGGCUUCCUGUUUUAUAAGGGAGAUGCGAUUUACUCGCAGUUGGCCACG
....((.((.((((((((.......(((((.........))))).((((((........)))))).............)))))))))).)) (-23.98 = -24.60 +   0.62)

alignment

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secondary structure

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dotplot

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Window 4

Location 22,504,614 – 22,504,705
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 89.56
Mean single sequence MFE -28.27
Consensus MFE -22.37
Energy contribution -24.12
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.79
SVM decision value 0.66
SVM RNA-class probability 0.814830
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22504614 91 - 23771897
CGUGGCCAACUGCGAGUAAAUCGCAUCUCCCUUAUAAAACAGGAAGCCGCAGGCUUCUUCUCCGCGAGGAUAAGCAGUUAGACCGCGAUUU
((((((.(((((((((..........)))...........((((((((...)))))))).(((....)))...)))))).).))))).... ( -31.40)
>DroSec_CAF1 12746 91 - 1
CGUGGCCAACUGCGAGUAAAUCGCAUCUCCCAUAUAAAACAGGAAGCCGCAGGCUUCUUCUCCGCGAGGAUAAGCAGUUAGACCGCGAAUU
((((((.(((((((((..........)))...........((((((((...)))))))).(((....)))...)))))).).))))).... ( -31.40)
>DroSim_CAF1 13050 91 - 1
CGUGGCCAACUGCGAGUAAAUCGCAUCUCCCUUAUAAAACAGGAAGCCGCAGGCUUCUUCUCCGCGAGGAUAAGCAGUUAGACCGCGAAUU
((((((.(((((((((..........)))...........((((((((...)))))))).(((....)))...)))))).).))))).... ( -31.40)
>DroEre_CAF1 14953 83 - 1
CGAGCCCAACUGCGAGUUAAUCGCAUCUCCCUAAUAAAACAGAAAGCCGCAGGCU--------GCGCGGAGGAGCAGUCAGACCGCGAAUU
..((((....(((((.....)))))(((............)))........))))--------.(((((..((....))...))))).... ( -18.90)
>consensus
CGUGGCCAACUGCGAGUAAAUCGCAUCUCCCUUAUAAAACAGGAAGCCGCAGGCUUCUUCUCCGCGAGGAUAAGCAGUUAGACCGCGAAUU
((((((.((((((.......((((......((........))((((((...))))))......))))......)))))).).))))).... (-22.37 = -24.12 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:58 2006