Locus 4522

Sequence ID 3L_DroMel_CAF1
Location 13,020,727 – 13,020,823
Length 96
Max. P 0.992451
window7065

overview

Window 5

Location 13,020,727 – 13,020,823
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 90.21
Mean single sequence MFE -30.67
Consensus MFE -24.02
Energy contribution -25.18
Covariance contribution 1.16
Combinations/Pair 1.11
Mean z-score -2.92
Structure conservation index 0.78
SVM decision value 2.33
SVM RNA-class probability 0.992451
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13020727 96 + 23771897
CGAGAAAGCGGAAGGCGGAUUGCUGAAGCCGUCUGCGGCUUUAGUAUUCCCUUUUGAUAUAUGUUACAAGUUAUAUAUAAGUGAGCCAGCAAUCGA
(((....((....((((((.(((((((((((....))))))))))).)))......(((((((........)))))))......))).))..))). ( -33.70)
>DroSec_CAF1 4603 96 + 1
CGAGCAAGCGGAAGGGGGAUUGCUGAAGACGCCUGCGGUUUCAGUAUUCCCUUUUGAUAUAUGUUACAAGUUAUAAAUAAGUGAGCCAGCAAUCGA
(((((..((..((((((((.((((((((.((....)).)))))))).))))))))........((((.............))))))..))..))). ( -27.42)
>DroSim_CAF1 4631 96 + 1
CGAGCCAGCGGAAGGGGAAUUGCUGAAGACGCCUGCGGUUUCAGUAUUCCCUUUUGAUAUAUGUUACAAGUUAUAAAUAAGUGAGCCAGCAAUCGA
(((((..((.((((((((((.(((((((.((....)).)))))))))))))))))........((((.............))))))..))..))). ( -27.72)
>DroEre_CAF1 4855 96 + 1
CAAGCAAGCGUAAGGGGGAUUGCCGAAGCCGAAUGCGGUUUCAGUAAUCCCUUUUGAUAUAUGUUACAAGUUAUAAAUAAGUGAGCCAGCAAUCGA
...((..((.(((((((((((((.(((((((....))))))).))))))))))))).......((((.............))))))..))...... ( -32.02)
>DroYak_CAF1 4839 96 + 1
CAAGCAGGCGGAACAGGGAUUGCUUAAGCCGAAUGCGGUUUUAGUAAUCCCUUUUAUUAUAUGUUACAAGUUAUAAAUAAGUGAGCCAGCAAUCGA
...((.(((...((((((((((((.((((((....)))))).)))))))))).(((((.((((........)))))))))))..))).))...... ( -32.50)
>consensus
CGAGCAAGCGGAAGGGGGAUUGCUGAAGCCGACUGCGGUUUCAGUAUUCCCUUUUGAUAUAUGUUACAAGUUAUAAAUAAGUGAGCCAGCAAUCGA
...((..((..((((((((.(((((((((((....))))))))))).))))))))........((((.............))))))..))...... (-24.02 = -25.18 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:39 2006