Locus 5654

Sequence ID 3R_DroMel_CAF1
Location 14,838,401 – 14,838,516
Length 115
Max. P 0.881537
window9241

overview

Window 1

Location 14,838,401 – 14,838,516
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.02
Mean single sequence MFE -18.04
Consensus MFE -6.62
Energy contribution -6.66
Covariance contribution 0.04
Combinations/Pair 1.09
Mean z-score -2.13
Structure conservation index 0.37
SVM decision value 0.92
SVM RNA-class probability 0.881537
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14838401 115 + 27905053
CACAACAACAUCUGCAGGCACUCAGAAAAAUAUCUGCAC-CGC-UUUGCAUAACUCAAAAACGUGC---UAAAUAUUAUAAUGAAACAUAUUCUUCAUUAAAAGUAUAGGAAUUAUUUUC
..........(((...(((((..(((......)))(((.-...-..))).............))))---)..(((((.(((((((........)))))))..))))).)))......... ( -14.70)
>DroSec_CAF1 1121 102 + 1
CACAUCCACAUCUGCAGGCACUCAGAAAAAUAUCUGUAGUCGCUUUUGCAUAACUCAAAAAUAUGC---UAAAUAUUAUAAUGAAACAUAUUCUUCAUUA-------------UUU--UC
............((((((((((((((......)))).))).)))..)))).........(((((..---...)))))((((((((........)))))))-------------)..--.. ( -17.40)
>DroSim_CAF1 2357 115 + 1
CACAUCUACAUCUGCAAGCACUCAGAAAAAUAUCUGUAGUUGCUUUUGCACAACUCAAAAAUAUGC---UAAAUAUUGUAAGGAAACAUUUUCUUCAUUAAAAGUAUAGUAAUUAU--UU
......(((...((((((((((((((......)))).)).))))..))))...........(((((---(...((.((.((((((....)))))))).))..))))))))).....--.. ( -20.40)
>DroEre_CAF1 10505 117 + 1
CAG-UCCACAUCUGCAGGCACUCAGAAAAACAUCUGUAAUUGC--UUGCAUAACGCAAAAAUAUGUAUAUACUUUUUAUACAGAAACAUUUGUUCAAUUAAAAAAAUUACAUUAAUUUUC
...-........((((((((..((((......))))....)))--)))))....(((((....((((((.......))))))......)))))........................... ( -20.20)
>DroYak_CAF1 1512 114 + 1
CAG-GCCACAUCUGCAGGCACUCAGAAAAACAUCUGUAAUUCC--UUGCAUAACUCAAAAAUAUGC---UAUAUUUUAUAAGGAAACAUUUUCUUAAUUCAAAAUAUUACAUUUAUUUUG
...-........((((((....((((......))))......)--))))).....(((((..(((.---.(((((((.(((((((....)))))))....)))))))..)))...))))) ( -17.50)
>consensus
CACAUCCACAUCUGCAGGCACUCAGAAAAAUAUCUGUAAUUGC_UUUGCAUAACUCAAAAAUAUGC___UAAAUAUUAUAAGGAAACAUUUUCUUCAUUAAAAAUAUAACAAUUAUUUUC
............(((((((...((((......)))).....))..)))))...................................................................... ( -6.62 =  -6.66 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:51 2006