Locus 4405

Sequence ID 3L_DroMel_CAF1
Location 12,899,480 – 12,899,595
Length 115
Max. P 0.914314
window6828

overview

Window 8

Location 12,899,480 – 12,899,595
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.15
Mean single sequence MFE -32.69
Consensus MFE -19.04
Energy contribution -20.46
Covariance contribution 1.42
Combinations/Pair 1.14
Mean z-score -2.59
Structure conservation index 0.58
SVM decision value 1.09
SVM RNA-class probability 0.914314
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12899480 115 + 23771897
AACCACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGAGGAAUUUUUUAUUCCUCCGCUUGCUUGGCUACUUGUGCCA-UUUUCUUCUUCCCACAAAA----AAAGAAAGUGUACCAGGG
...(((((.(((((...........))))))))))((((((((.....))))))))(((.....)))..((.((((.(-(((((((.((.......))----.)))))))))))).)).. ( -35.30)
>DroPse_CAF1 28844 93 + 1
GAAGACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGAAGCAUUUUUUAUUUCUCC--------GGCUACUUGCAC-U-UUUUGUACCGCACACAG----------AAGCUGU-------
((((((((...)))))).))...(((((((..((((..(((...............--------.)))...((((.-.-...)))))))).)))))----------)).....------- ( -17.69)
>DroSim_CAF1 18289 114 + 1
AACCACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGAGGAAUUUUUUAUUCCACCGCUUGCUUGGCUACUUGUGC-G-UCUUGUUCUUCCCACAAAA----AAAGAAAGUGUGCCAGGG
..((((((.(((((...........)))))))))))..(((((.....)))))........(((((((((((....-.-..((((.......))))..----.....))))).)))))). ( -33.24)
>DroEre_CAF1 25735 109 + 1
GUACACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGAGGAAUUUUUUAUUCCUCCGC----UCGGCUACUUGUAC-G-UUUUGUUCUACCCACAAAA----AA-GAAAGUGUGCCGGGG
...(((((.(((((...........))))))))))((((((((.....)))))))).(----((((((((((....-.-((((((.......))))))----..-..))))).)))))). ( -41.60)
>DroYak_CAF1 22748 111 + 1
GAACACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGAGGAAUUUUUUAUUCCUCCGC----UUGGCUACUUGUAC-GCUUUUGUUCUACCCACAAAA----AACGAAAGUGUGCCAGGG
...(((((.(((((...........))))))))))((((((((.....)))))))).(----(((((.......((-(((((((((............----))))))))))))))))). ( -41.01)
>DroAna_CAF1 47830 114 + 1
GAACACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGUAGAAUUU-UUAUUUCUCCGCU---UUGGAUACUUGUGC-U-UUUUGUUCCUCCCACAUAGUGUGCAAAAAAGUGUCAUGGGG
...(((((.(((((...........))))))))))((.((((...-....)))))).((---...(((((((.(((-.-...(((.......)))......)))...)))))))..)).. ( -27.30)
>consensus
GAACACUGUCAUAGUUUAUCACAUUCUGUGCAGUGGGAGGAAUUUUUUAUUCCUCCGC____UUGGCUACUUGUAC_G_UUUUGUUCUUCCCACAAAA____AAAGAAAGUGUGCCAGGG
...(((((.(((((...........))))))))))((((((((.....))))))))...........(((((.......((((((.......)))))).........)))))........ (-19.04 = -20.46 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:48 2006