Locus 1876

Sequence ID 3R_DroMel_CAF1
Location 5,384,279 – 5,384,399
Length 120
Max. P 0.556510
window3082

overview

Window 2

Location 5,384,279 – 5,384,399
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.11
Mean single sequence MFE -43.79
Consensus MFE -33.71
Energy contribution -33.83
Covariance contribution 0.12
Combinations/Pair 1.42
Mean z-score -1.48
Structure conservation index 0.77
SVM decision value 0.05
SVM RNA-class probability 0.556510
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5384279 120 - 27905053
GCUGCGCAGCGAGAUCGUGGGCGCCAUUAAGAUGCGCGUCUACUUGUCGGGAAUGCCAGAGCUGCGACUGGGUCUCAACGACAAGGUUCUGUUCGAGAGCACGGGCCGCGGCAAGUCAAA
((((((((((..(((.(((((((((((....))).))))))))..)))((.....))...)))))......(((.....)))..(((((((((....)))).))))))))))........ ( -46.70)
>DroVir_CAF1 3124 120 - 1
GCUGCGCAGCGAAAUCGUUGGCGCCAUUAAAAUGCGCGUCUAUUUGUCUGGCAUGCCAGAGCUGCGUUUGGGCCUCAACGAUAAGGUGCUCUUCGAGAGCACUGGGCGUGGCAAAUCCAA
((..(((......((((((((.(((....((((((((..(.....)(((((....))))))).)))))).))).))))))))..(((((((.....)))))))..)))..))........ ( -51.80)
>DroGri_CAF1 3101 120 - 1
UCUGCGCAGCGAAAUCGUUGGCGCCAUCAAAAUGCGUGUCUAUCUUUCGGGCAUGCCAGAGCUGCGUUUGGGCCUCAACGAUAAGGUGCUCUUCGAGAGCACCGGCCGUGGCAAAUCCAA
..(((((.((...((((((((.(((....((((((((((((.......))))))((....)).)))))).))).))))))))..(((((((.....))))))).)).)).)))....... ( -46.10)
>DroWil_CAF1 3363 120 - 1
GCUGCGCAGUGAGAUUGUAGGAGCUAUUAAAAUGCGAGUUUACCUGUCAGGGAUGCCGGAAUUGCGUUUGGGUCUGAACGACAAAGUGCUGUUCGAAAGCACUGGACGCGGCAAAUCCAA
.(((.((((((((.(((((.............))))).)))).)))))))((((((((...((((((((......))))).)))((((((.......)))))).....)))))..))).. ( -35.12)
>DroMoj_CAF1 2850 120 - 1
GCUGCGUAGCGAAAUUGUGGGCGCCAUCAAAAUGCGCGUCUAUCUGUCCGGUAUGCCGGAGCUUCGUUUGGGACUCAACGACAAGGUGCUCUUCGAGAGCACCGGACGUGGCAAAUCCAA
((..((((((......(((((((((((....))).))))))))...(((((....))))))))(((((........)))))...(((((((.....)))))))..)))..))........ ( -48.30)
>DroAna_CAF1 2511 120 - 1
UCUUCGAAGCGAAAUUGUGGGCGCUAUAAAAAUGCGCGUUUAUCUUUCGGGCAUGCCUGAGCUGCGCCUAGGUCUCAAUGACAAAGUCCUAUUCGAGAGCACGGGGCGAGGCAAAUCCAA
..((((...))))....(((((((.........)))).........(((((....)))))(((.(((((.(.((((((((((...)))..))).)))).)...))))).)))....))). ( -34.70)
>consensus
GCUGCGCAGCGAAAUCGUGGGCGCCAUUAAAAUGCGCGUCUAUCUGUCGGGCAUGCCAGAGCUGCGUUUGGGUCUCAACGACAAGGUGCUCUUCGAGAGCACCGGACGUGGCAAAUCCAA
((((((((((......(((((((((((....))).))))))))...(((((....))))))))))((((((..(((..(((...........))).)))..)))))))))))........ (-33.71 = -33.83 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:41 2006