Locus 4757

Sequence ID 3R_DroMel_CAF1
Location 12,483,488 – 12,483,582
Length 94
Max. P 0.777557
window7804

overview

Window 4

Location 12,483,488 – 12,483,582
Length 94
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 81.64
Mean single sequence MFE -13.30
Consensus MFE -11.55
Energy contribution -11.88
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.57
Structure conservation index 0.87
SVM decision value 0.55
SVM RNA-class probability 0.777557
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12483488 94 - 27905053
GAAGAGGAGUGC---GACAAACCGUUUGCCCCGGCAAACGCAAAUAAAUUAUUGGUUUUGAAAAAAUCUAAAGAAAACAAAAAAAAAAAACAAUGAG
.........(((---(......)((((((....))))))))).........((((.(((....))).)))).......................... ( -13.00)
>DroPse_CAF1 6795 81 - 1
GAA--GGAGGACGACGACAAAUCGUUUGCCCUGGCAAACGAAAAUAAAUUAUUGGUUUUGAAAAAAUCUAU--------------AAAAACAAAGAG
...--(..(.....)..)...((((((((....)))))))).......((((.(((((.....))))).))--------------)).......... ( -14.80)
>DroEre_CAF1 5176 84 - 1
GUAGAGGAGUAC---GACAAACCGUUUGCCCCGGCAAACGCAAAUAAAUUAUUGGUUUUGAAAAAAUCUAAAGAA----------AAAAACAAUGAG
............---.......(((((((....)))))))........((((((.((((................----------)))).)))))). ( -12.89)
>DroYak_CAF1 5042 84 - 1
AUAGAGGAGUAC---GACAAACCGUUUGCCCCGGCAAACGCAAAUAAAUUAUUGGUUUUGAAAAAAUCUAAAGAA----------AAAAACAAUGAG
.((((......(---((..((((((((((....))))))...((((...)))))))))))......)))).....----------............ ( -12.90)
>DroAna_CAF1 4740 90 - 1
GAAAAGAAGGAC---GACAAAUCGUUUGCUCCGGCAAACGCAAAUAAAUUAUUGGUUUUGAAAAAAUCUAAAAAAAGAAACAA--AAACAUAAC--G
............---.......(((((((....)))))))...........((((.(((....))).))))............--.........--. ( -11.30)
>DroPer_CAF1 6742 77 - 1
GAA--GGAGGAC---GACAAAUCGUUUGCCCUGGCAAACGAAAAUAAAUUAUUGGUUUUGAAAAAAUCUA---------------AAAAACAAAGAG
...--.......---......((((((((....))))))))..........((((.(((....))).)))---------------)........... ( -14.90)
>consensus
GAAGAGGAGGAC___GACAAACCGUUUGCCCCGGCAAACGCAAAUAAAUUAUUGGUUUUGAAAAAAUCUAAAGAA__________AAAAACAAUGAG
......................(((((((....)))))))...........((((.(((....))).)))).......................... (-11.55 = -11.88 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:08 2006