Locus 4842

Sequence ID 3L_DroMel_CAF1
Location 13,577,912 – 13,578,007
Length 95
Max. P 0.655638
window7638

overview

Window 8

Location 13,577,912 – 13,578,007
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.43
Mean single sequence MFE -31.27
Consensus MFE -22.15
Energy contribution -22.57
Covariance contribution 0.42
Combinations/Pair 1.12
Mean z-score -1.75
Structure conservation index 0.71
SVM decision value 0.26
SVM RNA-class probability 0.655638
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13577912 95 + 23771897
----------------UGCCCCAGCUGCUGUCGCGUUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUGGAC--CCAUGC------A-CAUGGCCUGCAGGCAA
----------------((((...(((..((((((......))))))..))).......((((.......(((((.......)))))..--((((..------.-.)))).)))).)))). ( -26.60)
>DroVir_CAF1 82381 116 + 1
CAAGCUGUAAGG---CAGCUGCUGCUGUUGUCGCGUUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUAGCCGGCCGUGCAGACUGA-ACUGGCCUGCAGGCAA
..(((((.....---)))))((((((.(((((((......))))))).)))..(((...(((.......)))...)))......)))..(((.(((((.((..-...)).)))))))).. ( -37.40)
>DroPse_CAF1 67818 106 + 1
----------CGCCACCG-CACUGCUGCUGUCGCGCUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUGGAC--CCAUGCAUGCACA-CAUGGCCUGCAGGCAA
----------.(((.(((-.((((((..((((((......))))))..)))).(((...(((.......)))...)))...)))))..--...((((.((.(.-...))).))))))).. ( -30.40)
>DroGri_CAF1 79811 107 + 1
----------AG---CUGCCUCUGCUGUUGUCGCGUUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUAGCCGGCCGUGCUGACUCAAACUGGCCUGCAGGCAA
----------..---.(((((.((((.(((((((......))))))).)))).(((...(((.......)))...))).......((.((((((..........)).)))).))))))). ( -32.90)
>DroEre_CAF1 60795 99 + 1
----------GG--ACCGCCCCAGCUGCUGUCGCGUUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUGGAG--CCAUGC------A-CAUGGCCUGCAGGCAA
----------..--...(((...(((..((((((......))))))..))).......((((.......(((((.......))))).(--((((..------.-.))))))))).))).. ( -29.90)
>DroPer_CAF1 67494 106 + 1
----------CGCCACCG-CACUGCUGCUGUCGCGCUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUGGAC--CCAUGCAUGCACA-CAUGGCCUGCAGGCAA
----------.(((.(((-.((((((..((((((......))))))..)))).(((...(((.......)))...)))...)))))..--...((((.((.(.-...))).))))))).. ( -30.40)
>consensus
__________CG___CCGCCACUGCUGCUGUCGCGUUAAAGUGGCAAAAGCAAUCGAAGUAGAAAAUAACUAAUACGACACGUUGGAC__CCAUGCA__C_CA_CAUGGCCUGCAGGCAA
.................(((...(((..((((((......))))))..))).......((((.......(((((.......)))))....(((((.........))))).)))).))).. (-22.15 = -22.57 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:56 2006