Locus 5133

Sequence ID X_DroMel_CAF1
Location 13,407,337 – 13,407,429
Length 92
Max. P 0.955375
window8341

overview

Window 1

Location 13,407,337 – 13,407,429
Length 92
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 85.49
Mean single sequence MFE -30.37
Consensus MFE -24.70
Energy contribution -23.95
Covariance contribution -0.75
Combinations/Pair 1.18
Mean z-score -2.28
Structure conservation index 0.81
SVM decision value 1.45
SVM RNA-class probability 0.955375
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13407337 92 + 22224390
------GGAGUAU-------GUGGCAAGCCAAAGAACAAGCAAGGCCCUUCAGGGCUUUCUGUCAUAUGUGGAAAUAUAUAUAUUUUCGGUGCUCAUGCACUGCA
------(((((((-------(((.....(((.......((.(((((((....)))))))))........))).....))))))))))((((((....)))))).. ( -29.46)
>DroSec_CAF1 3236 88 + 1
------GGAGUAU-------GUGGCAAGCCAAAGAACAAGCAAGGCCCUUUAGGGCUUUCUGUCAUAUGUGGAAAUA----CAUUUUCGGUGCUUAUGCACUGCG
------.(((.((-------(((.....(((.......((.(((((((....)))))))))........)))...))----))).)))(((((....)))))... ( -27.46)
>DroSim_CAF1 3138 88 + 1
------GGAGUAU-------GUGGCAAGCCAAAGAACAAGCAAGGCCCUUUAGGGCUUUCUGUCAUAUGUGGAAAUA----CAUUUUCGGUGCUUAUGCACUGCG
------.(((.((-------(((.....(((.......((.(((((((....)))))))))........)))...))----))).)))(((((....)))))... ( -27.46)
>DroYak_CAF1 11514 101 + 1
CGGAGUGGAGUAUGUGGCAUGUGGCAAGCCGAAGAACAAGCAAGGCCCUUCAGGGCUUUCUGUCAUAUGUGAAGAUA----CAUUCUCAGUGCACAUGCACUGCA
.((((((..((...(.((((((((((.((..........))(((((((....))))))).)))))))))).)..)).----))))))((((((....)))))).. ( -37.10)
>consensus
______GGAGUAU_______GUGGCAAGCCAAAGAACAAGCAAGGCCCUUCAGGGCUUUCUGUCAUAUGUGGAAAUA____CAUUUUCGGUGCUCAUGCACUGCA
.....................(((....)))..((...((.(((((((....))))))))).))...(((((((((......))))))(((((....)))))))) (-24.70 = -23.95 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:48 2006