Locus 193

Sequence ID 3L_DroMel_CAF1
Location 545,642 – 545,747
Length 105
Max. P 0.617257
window277

overview

Window 7

Location 545,642 – 545,747
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.72
Mean single sequence MFE -20.58
Consensus MFE -17.54
Energy contribution -17.35
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.49
Structure conservation index 0.85
SVM decision value 0.17
SVM RNA-class probability 0.617257
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 545642 105 + 23771897
CAGACUAA--AAAAAA-------AAAAAUCCAAGCGACCUUUAAGCGGUCGUCAACAUU-UUGUUUACUUCAACACAAAGUCGUUUCGCUAG-----UCUAGCCACAUGGAAAAACGCAA
.((((((.--......-------..........((((((.......)))))).((((((-((((..........))))))).)))....)))-----)))..((....)).......... ( -18.40)
>DroEre_CAF1 23520 109 + 1
CAGACUAA--AAAAAA---UUUAUAAAAACCGAGCGACCUUUAAGCGGUCGUCAACACU-UUGUUUACUUCAACACAAAGUCGUUUCGCUGG-----UCUAGCCACAUGGAAAAAUGCAA
.((((((.--......---............((.(((((.......)))))))((((((-((((..........))))))).)))....)))-----)))..((....)).......... ( -20.80)
>DroYak_CAF1 20298 111 + 1
CAGACUAAGAAAAAAA---UAAAUAAAAACCAAGCGACCUUUAAGCGGUCGUCAACACU-UUGUUUACUUCAACACAAAGUCGUUUCGCUAG-----UCUAGCCACAUGGAAAAAUGCAA
.((((((.((((....---..............((((((.......))))))....(((-((((..........)))))))..))))..)))-----)))..((....)).......... ( -22.20)
>DroAna_CAF1 24764 118 + 1
CAGACUGA--AAAAAAAAAACAAGAAAAUACAAGCGACCUUUAAACGGUCGUCAACAUUGCUGUUUACUUCAAUACAAAGUCGUCUCGCUAGCCCAGCCUAGCCGCUUGGAAAAUCGCAA
........--.............((.....((((((.....((((((((.((....)).))))))))....................(((((......))))))))))).....)).... ( -20.90)
>consensus
CAGACUAA__AAAAAA___U_AAUAAAAACCAAGCGACCUUUAAGCGGUCGUCAACACU_UUGUUUACUUCAACACAAAGUCGUUUCGCUAG_____UCUAGCCACAUGGAAAAACGCAA
..((((...........................((((((.......)))))).((((....)))).............)))).....(((((......)))))................. (-17.54 = -17.35 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:25 2006