Locus 2047

Sequence ID 3L_DroMel_CAF1
Location 5,635,339 – 5,635,458
Length 119
Max. P 0.681310
window3194

overview

Window 4

Location 5,635,339 – 5,635,458
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 77.14
Mean single sequence MFE -38.88
Consensus MFE -20.45
Energy contribution -22.90
Covariance contribution 2.45
Combinations/Pair 1.23
Mean z-score -1.84
Structure conservation index 0.53
SVM decision value 0.31
SVM RNA-class probability 0.681310
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5635339 119 + 23771897
AAAGAGAUUUGCCGUAUUUUCGUUGGAAAUUUUCAGGCAAAUCGGUCCCAGUUGGGAACUUCUACAGUGUCGGAGCAGAGUGAGAUAUAUUGCUCCAUCGCUGGCAAUGAUCUCAUUGA
..(((((((((((....((((....))))......))))))))..((((....))))...))).(((((..(((((((.(((...))).)))))))..))))).(((((....))))). ( -42.70)
>DroPse_CAF1 5307 119 + 1
GAAGACCUCCGCCAGGCCGCUGUUGUGGAAUCGCAAACAAAUGGGUCCCAGUUCGGGGCUCCGGCAGUGUCGUAGCAGGGACAAGUAGAUGGAACCAUCGGAGGCAAAGAUCUCGUUGA
...(.(((((((.(..((((....))))..).))......((..(((((.((((((.(((.....))).))).))).)))))..)).((((....)))))))))).............. ( -39.90)
>DroSim_CAF1 8757 119 + 1
AAAGAGAUUGACCGUAUUUUCGCUGGAAAUUCUCAGGCAAAUAGGUCCCAGUUGGGGGGAUCUACAGUGUCGGAGCAGGGUGAGAUAUAUUGCUCCAUCGCUGGCAAUGAUCUCAUUGA
...((((((.............((((......))))((...((((((((.......))))))))(((((..(((((((.(((...))).)))))))..)))))))...))))))..... ( -40.90)
>DroEre_CAF1 8533 119 + 1
AAACAGAUUUACCAUAUUUUCGCUGUAAAUUCUCAGGCAAAUCGGUCCCUCUUGAGGACUUCUACAGUGACGGAGCAGAGUGAGAUAUAUUGCUCCAUCGCUGGCAAUAAUCUCAUUGA
....(((((.............(((........)))((.....((((((....).)))))....((((((.(((((((.(((...))).))))))).))))))))...)))))...... ( -30.80)
>DroYak_CAF1 8240 119 + 1
AUAGAGAUUGACCAUAUUUUCGCUGGAAAUUCUCAGGCAAAUCGGUCCCAGUUGGGGACUUCUACAGUGUCGGAGCAAAGUGAGAUAUAUUGCUCCAUCGCUGGCAAUGAUCUCAUUGA
...((((((.............((((......))))((.....((((((.....))))))....(((((..(((((((.(((...))).)))))))..)))))))...))))))..... ( -39.10)
>DroPer_CAF1 5327 119 + 1
GAAGACCUCCGCCAGGCCGCUGUUGUGGAAUCGCAAACAAAUGGGUCCCAGUUCGGGGCUCCGGCAGUGUCGUAGCAGGGACAAGUAGAUGGAACCAUCGGAGGCAAAGAUCUCGUUGA
...(.(((((((.(..((((....))))..).))......((..(((((.((((((.(((.....))).))).))).)))))..)).((((....)))))))))).............. ( -39.90)
>consensus
AAAGAGAUUCACCAUAUUUUCGCUGGAAAUUCUCAGGCAAAUCGGUCCCAGUUGGGGACUUCUACAGUGUCGGAGCAGAGUGAGAUAUAUUGCUCCAUCGCUGGCAAUGAUCUCAUUGA
...((((((.............((((......))))((.....((((((.....))))))....(((((..(((((((...........)))))))..)))))))...))))))..... (-20.45 = -22.90 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:10 2006