Locus 3928

Sequence ID X_DroMel_CAF1
Location 10,486,521 – 10,486,639
Length 118
Max. P 0.581880
window6452

overview

Window 2

Location 10,486,521 – 10,486,639
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.43
Mean single sequence MFE -12.03
Consensus MFE -7.47
Energy contribution -7.37
Covariance contribution -0.11
Combinations/Pair 1.19
Mean z-score -1.69
Structure conservation index 0.62
SVM decision value 0.10
SVM RNA-class probability 0.581880
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10486521 118 - 22224390
UCACCACGCAAAAUCUUCAUUACUUUUUCAAUGAAUUUAUUAAUUCCAC--AAGUUAAAUGCCAUUUAUCUCUUUUGAGAAAAGUUUAAAUCACAAAGUUUAUCAUAACUAUCCCUUUUU
.......(((.....((((((........))))))....((((((....--.)))))).))).((((.((((....)))).))))...........((((......)))).......... ( -10.70)
>DroEre_CAF1 18535 103 - 1
--------------CGCCAUUACUUUUUCAAUGCAUUUAUUAACUCCAC--AAGUUAAAUGCCAUUUAUCUCUUUUGAGAAAAAUGUAAAUCACAAAGUUUGUCAUAACUAUCCCUU-CC
--------------.(.((..(((((......(((((((...(((....--.))))))))))(((((.((((....)))).)))))........))))).)).).............-.. ( -15.10)
>DroYak_CAF1 19444 119 - 1
CCACCACAAAAAACACCCAUUACUUUUUCAAUGAAUUUAUUAUUUCUAAUGACAUUAAAGAACAUUUAUCUCUUUUGAGAAAAGUUGAAAUCACAAAGUUUAUCAUAACUAUCCCUU-UC
.........................(((((((....((((((....))))))................((((....))))...)))))))......((((......)))).......-.. ( -10.30)
>consensus
_CACCAC__AAAA_CCCCAUUACUUUUUCAAUGAAUUUAUUAAUUCCAC__AAGUUAAAUGCCAUUUAUCUCUUUUGAGAAAAGUUUAAAUCACAAAGUUUAUCAUAACUAUCCCUU_UC
...............................(((((((.((((((.......))))))..........((((....)))).)))))))........((((......)))).......... ( -7.47 =  -7.37 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:02 2006