Locus 3783

Sequence ID 2L_DroMel_CAF1
Location 11,052,119 – 11,052,216
Length 97
Max. P 0.834691
window5961 window5962

overview

Window 1

Location 11,052,119 – 11,052,216
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 85.54
Mean single sequence MFE -30.75
Consensus MFE -24.11
Energy contribution -24.68
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.88
Structure conservation index 0.78
SVM decision value 0.73
SVM RNA-class probability 0.834691
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11052119 97 + 22407834
UGGGGGACUCCGGAUUCCGGGACUCGGGAGGGGCGGACCCAGGCCAAGUGGCCAUCGAUAUGCGGGAAAAAAUCGCAAAUCAUAACCACGGCAACAA
((((((..((((..(((((.....)))))....))))))).((((....))))...(((.(((((.......))))).)))....))).(....).. ( -34.40)
>DroSec_CAF1 40610 82 + 1
UGGGGGA---------------CUCGGGAGGGGCGUACCCAGGCCAAGUGGCCAUCGAUAUGCGGGAAAAAAUCGCAAAUCAUAACCACGGCAACAA
((((...---------------(((....))).....))))((((....))))...(((.(((((.......))))).)))........(....).. ( -27.20)
>DroSim_CAF1 40692 82 + 1
UGGGGGA---------------CUCGGGAGGGGCGUACCCAGGCCAAGUGGCCAUCGAUAUGCGGGAAAAAAUCGCAAAUCAUAACCACGGCAACAA
((((...---------------(((....))).....))))((((....))))...(((.(((((.......))))).)))........(....).. ( -27.20)
>DroEre_CAF1 43066 97 + 1
CGAGGGACCCCGGACUCCGGGCUUCGGGAGGGGCGGACCCAGGAGAAGUGGCCAUCGAUAUGCGGGAAAAAAUCGCAAAUCAUAACCACGGCAACAA
...(((.((((((...))))(((((....))))))).))).......((((..((.(((.(((((.......))))).)))))..))))(....).. ( -34.20)
>consensus
UGGGGGA_______________CUCGGGAGGGGCGGACCCAGGCCAAGUGGCCAUCGAUAUGCGGGAAAAAAUCGCAAAUCAUAACCACGGCAACAA
.(((....((((.....)))).)))(((((((.....))).((((....)))).))(((.(((((.......))))).)))....))..(....).. (-24.11 = -24.68 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 11,052,119 – 11,052,216
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 85.54
Mean single sequence MFE -28.77
Consensus MFE -23.20
Energy contribution -23.70
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.38
Structure conservation index 0.81
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11052119 97 - 22407834
UUGUUGCCGUGGUUAUGAUUUGCGAUUUUUUCCCGCAUAUCGAUGGCCACUUGGCCUGGGUCCGCCCCUCCCGAGUCCCGGAAUCCGGAGUCCCCCA
.....((((((((((((((.((((.........)))).))).))))))))..)))(((((((((...((....))...))).))))))......... ( -31.80)
>DroSec_CAF1 40610 82 - 1
UUGUUGCCGUGGUUAUGAUUUGCGAUUUUUUCCCGCAUAUCGAUGGCCACUUGGCCUGGGUACGCCCCUCCCGAG---------------UCCCCCA
........(((((((((((.((((.........)))).))).))))))))((((...(((....)))...)))).---------------....... ( -25.10)
>DroSim_CAF1 40692 82 - 1
UUGUUGCCGUGGUUAUGAUUUGCGAUUUUUUCCCGCAUAUCGAUGGCCACUUGGCCUGGGUACGCCCCUCCCGAG---------------UCCCCCA
........(((((((((((.((((.........)))).))).))))))))((((...(((....)))...)))).---------------....... ( -25.10)
>DroEre_CAF1 43066 97 - 1
UUGUUGCCGUGGUUAUGAUUUGCGAUUUUUUCCCGCAUAUCGAUGGCCACUUCUCCUGGGUCCGCCCCUCCCGAAGCCCGGAGUCCGGGGUCCCUCG
........(((((((((((.((((.........)))).))).)))))))).......(((...(((((.((((.....))).)...))))))))... ( -33.10)
>consensus
UUGUUGCCGUGGUUAUGAUUUGCGAUUUUUUCCCGCAUAUCGAUGGCCACUUGGCCUGGGUACGCCCCUCCCGAG_______________UCCCCCA
........(((((((((((.((((.........)))).))).))))))))((((...(((....)))...))))....................... (-23.20 = -23.70 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:08 2006