Locus 2249

Sequence ID X_DroMel_CAF1
Location 6,065,655 – 6,065,768
Length 113
Max. P 0.894465
window3642

overview

Window 2

Location 6,065,655 – 6,065,768
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.33
Mean single sequence MFE -33.15
Consensus MFE -26.85
Energy contribution -26.85
Covariance contribution -0.00
Combinations/Pair 1.09
Mean z-score -2.06
Structure conservation index 0.81
SVM decision value 0.98
SVM RNA-class probability 0.894465
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6065655 113 + 22224390
AAGUAACGCCGAUAA-CGAUUGUCGUUUU--UGUUCAGUUUAAAUUAAACAAUUCGCAUAGUU----CUUAUCGGCAACGUGACAAUUGUCCAAAUUGCCGACUAACGCUGAGCGGGCUG
.......((((((((-.((((((((...(--((((.(((....))).)))))..)).))))))----.)))))(((((..((((....)).))..)))))......(((...)))))).. ( -28.50)
>DroSec_CAF1 76561 115 + 1
AAGUAACGCCGAUAA-CGAUUGUCAGUUCAGUGUUCAGUUUAAAUUAAACAAUGCGCGUAGUU----CUUAUCGGCAACGUGACAAUUGUCCAAAUUGUCGACUAACGCUGAGCGGGCAG
.......(((((((.-....)))).((((((((((.((((..((((..(((((.(((((.(((----......))).)))))...)))))...))))...)))))))))))))).))).. ( -35.80)
>DroSim_CAF1 72672 115 + 1
AAGUAACGCCGAUAA-CGAUUGUCAGUUCAGUGUUCAGUUUAAAUUAAACAAUGCGCGUAGUU----CUUAUCGGCAACGUGACAAUUGUCCAAAUUGUCGACUAACGCUGAGCGGGCAG
.......(((((((.-....)))).((((((((((.((((..((((..(((((.(((((.(((----......))).)))))...)))))...))))...)))))))))))))).))).. ( -35.80)
>DroYak_CAF1 77073 113 + 1
AAGUAACACCGAUAACCGAUUGUCGGUUC--UGUUCAGUUU-----AAGCAAUGCGCGUAUUUCUUUCUUAUCGGCAACGUGACAAUUGUCCAAAUUGUCAACUAACGCUGAGCGGGUAG
.......((((((((....))))))))((--((((((((..-----..((.....))((.............((....))((((((((.....))))))))....))))))))))))... ( -32.50)
>consensus
AAGUAACGCCGAUAA_CGAUUGUCAGUUC__UGUUCAGUUUAAAUUAAACAAUGCGCGUAGUU____CUUAUCGGCAACGUGACAAUUGUCCAAAUUGUCGACUAACGCUGAGCGGGCAG
.......((((((((....))))).......((((((((((.....)))).....((((((((.........((....)).(((((((.....))))))))))).))))))))))))).. (-26.85 = -26.85 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:43 2006