Locus 1039

Sequence ID 3L_DroMel_CAF1
Location 3,074,339 – 3,074,455
Length 116
Max. P 0.979567
window1604

overview

Window 4

Location 3,074,339 – 3,074,455
Length 116
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 91.31
Mean single sequence MFE -29.78
Consensus MFE -27.17
Energy contribution -25.87
Covariance contribution -1.30
Combinations/Pair 1.15
Mean z-score -1.91
Structure conservation index 0.91
SVM decision value 1.84
SVM RNA-class probability 0.979567
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3074339 116 + 23771897
UUUCUCUUCAAUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACACUCUAAUGAGUCUAAAAUAAUUUUUAG-UAGUGCCC-UGUCGCAAGACU-GGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))((((((....))))))-..(.((((-((((....))).-)))))). ( -33.60)
>DroVir_CAF1 23601 115 + 1
CUUCUCUUCAGUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAGCACUCUAAUGAGUCUAAAAUAAUUUUUGC-UAGUGCCC-GAUUGCAAAAU--UGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))................-..(.((((-((((....)))--)))))). ( -29.50)
>DroGri_CAF1 19246 113 + 1
CUUCUCUUCAGUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAGCACUCUAAUGAGUCUAAAAUAAUUUUUUG-CAGUGCCU-GAUUCCC--AU--CGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))................-..(.((((-(((....--))--)))))). ( -27.20)
>DroWil_CAF1 14188 117 + 1
CUUCUCUUCAGUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAGCACUCUAAUGAGUCUAAAAUAAUUUUUUGUUAGUGCCCUUGUUGCAAAAC--GGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))....(((((....))))).(.(((((.(((....)))--)))))). ( -27.80)
>DroMoj_CAF1 20300 115 + 1
CUUCUCUUCAGUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAGCACUCUAAUGAGUCUAAAAUAAUUUUUGC-UAGUGCCU-GAUUGCAAAAU--CGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))................-..(.((((-((((....)))--)))))). ( -29.40)
>DroPer_CAF1 9895 117 + 1
CUUCUCUUCAGUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGGGCACUCUAAUGAGUCUAAAUUAAUUUUUUG-UAGUGCCC-UGUCGCAAGACUUGGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))................-..(.((((-((((....)))..)))))). ( -31.20)
>consensus
CUUCUCUUCAGUUGUCGAAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAGCACUCUAAUGAGUCUAAAAUAAUUUUUUG_UAGUGCCC_GAUUGCAAAAC__GGGGCCA
((((((((((.....((...((((((((.(.......).)))))))).)))))))))))).((((....))))...................(.((((..(((....)))...))))). (-27.17 = -25.87 +  -1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:27 2006