Locus 6804

Sequence ID 3R_DroMel_CAF1
Location 17,976,848 – 17,976,940
Length 92
Max. P 0.827815
window11045 window11046

overview

Window 5

Location 17,976,848 – 17,976,940
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 92.93
Mean single sequence MFE -26.35
Consensus MFE -20.69
Energy contribution -21.50
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -2.37
Structure conservation index 0.79
SVM decision value 0.70
SVM RNA-class probability 0.827815
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17976848 92 + 27905053
UUGGCAUUUUCCAAAACACUCUGCCGCAUCAUCGGCAGCCAAAUGGAUUUUUGGGAGGAUCCCAUGUGGGUUUCUUUGAAUACCCUUUCAAA
.(((.(((((((........((((((......)))))).((((......))))))))))).)))((.(((((((...))).))))...)).. ( -25.90)
>DroSec_CAF1 20012 92 + 1
UUGGCAUUUUCCAAAACACUCUGCCGCAUCAUCGGCAGCCAAAUGGAUUUUUGGGAGGAUCCCAUGUGGGCUUCUUUGAAUAAGCUUCCAAA
.(((.(((((((........((((((......)))))).((((......))))))))))).)))((..(((((........)))))..)).. ( -27.50)
>DroSim_CAF1 21460 92 + 1
UUGGAAUUUUCCAAAACACUCUGCCGCAUCAUCGGCAGCCAAAUGGAUUUUUGGGAGGAUCCCAUGUGGGUUUCUUCGAAUACCCUUUCAAA
(((((....)))))......((((((......))))))(((((......)))))(((((.(((....)))..)))))(((......)))... ( -28.00)
>DroYak_CAF1 21196 88 + 1
UUGGCAUUUUCCAAAACAC--UGCCUCAUCAUCGGCAGCCAAAUGGAUU-CUGGGAGGAUCCCAUGUGGGUUUCUUUGAAUACCCUUUCCA-
.(((.(((((((......(--((((........)))))((....))...-...))))))).)))...(((((((...))).))))......- ( -24.00)
>consensus
UUGGCAUUUUCCAAAACACUCUGCCGCAUCAUCGGCAGCCAAAUGGAUUUUUGGGAGGAUCCCAUGUGGGUUUCUUUGAAUACCCUUUCAAA
((((......))))......((((((......))))))(((((......)))))(((((.(((....)))..)))))............... (-20.69 = -21.50 +   0.81)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,976,848 – 17,976,940
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 92.93
Mean single sequence MFE -26.77
Consensus MFE -21.16
Energy contribution -21.98
Covariance contribution 0.81
Combinations/Pair 1.05
Mean z-score -2.03
Structure conservation index 0.79
SVM decision value 0.45
SVM RNA-class probability 0.741033
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17976848 92 - 27905053
UUUGAAAGGGUAUUCAAAGAAACCCACAUGGGAUCCUCCCAAAAAUCCAUUUGGCUGCCGAUGAUGCGGCAGAGUGUUUUGGAAAAUGCCAA
........((((((..............((((.....))))....((((.....((((((......)))))).......)))).)))))).. ( -26.60)
>DroSec_CAF1 20012 92 - 1
UUUGGAAGCUUAUUCAAAGAAGCCCACAUGGGAUCCUCCCAAAAAUCCAUUUGGCUGCCGAUGAUGCGGCAGAGUGUUUUGGAAAAUGCCAA
.((((..((((........)))).....((((.....))))....((((.....((((((......)))))).......)))).....)))) ( -25.50)
>DroSim_CAF1 21460 92 - 1
UUUGAAAGGGUAUUCGAAGAAACCCACAUGGGAUCCUCCCAAAAAUCCAUUUGGCUGCCGAUGAUGCGGCAGAGUGUUUUGGAAAAUUCCAA
.......((((.(((...)))))))...((((((....((((((..((....))((((((......))))))....))))))...)))))). ( -26.40)
>DroYak_CAF1 21196 88 - 1
-UGGAAAGGGUAUUCAAAGAAACCCACAUGGGAUCCUCCCAG-AAUCCAUUUGGCUGCCGAUGAUGAGGCA--GUGUUUUGGAAAAUGCCAA
-(((...((((.(((...)))))))...((((.....)))).-..((((....((((((........))))--))....)))).....))). ( -28.60)
>consensus
UUUGAAAGGGUAUUCAAAGAAACCCACAUGGGAUCCUCCCAAAAAUCCAUUUGGCUGCCGAUGAUGCGGCAGAGUGUUUUGGAAAAUGCCAA
.......((((.(((...)))))))...((((.....))))....((((.....((((((......)))))).......))))......... (-21.16 = -21.98 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:22 2006