Locus 8383

Sequence ID X_DroMel_CAF1
Location 20,811,520 – 20,811,630
Length 110
Max. P 0.500000
window13769

overview

Window 9

Location 20,811,520 – 20,811,630
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.45
Mean single sequence MFE -19.69
Consensus MFE -16.41
Energy contribution -16.35
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.34
Structure conservation index 0.83
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20811520 110 + 22224390
AGCCCAUUCCAUGAUAACAAUCCAUUUGUAUGAGUCCCAAUAAAUUACCCAUAAAAAUCAUCUUCCCCAUUUUUAAAGACUCGCCAAUGGUUGGCCGAAAAAAAA--AAAG--------A
.(((....((((....((((.....))))..(((((.....((((.......................)))).....)))))....))))..)))..........--....--------. ( -12.90)
>DroSim_CAF1 7157 112 + 1
AGCCCAUCCCGUGAUAAUAAUCCAUUUGUAUGGGUCCCAAUAAAUUGCCCAUAAAAAUCAUCUUCCCCAUUUUUAAAGACUCGCCAAUGGUGGGCCGAAAGAAAAGAAGAG--------A
.(((((((..((((.........((((.(((((((...........))))))).))))..((((...........)))).))))....)))))))(....)..........--------. ( -23.30)
>DroEre_CAF1 3579 110 + 1
AGCCCAUCCCAUGAUAACAAUCCAUUUGUAUGGGUCCCAAUAAAUUACCCAUAAAAAUCAUCUUC-CCAUUUUUAAAGACUCACCAAUGGUGGGCCGAAGAAAAA-AGUGG--------A
..........(((((.((((.....))))((((((...........))))))....)))))....-((((((((...(.((((((...)))))).)......)))-)))))--------. ( -22.60)
>DroYak_CAF1 7811 119 + 1
AGCCCAGUCCAUGAUAACAAUCCGUUUGUAUGGGUCUCAAUAAAUUACCCAUAAAAAUUAUCUUCCCCAUUUUUAAAGACUCGCCAAUGGUGGGCCAAAAAAAAA-AAAAGCAGCAAAAA
.(((((......((((((((.....)))(((((((...........)))))))....)))))....(((((..............))))))))))..........-.............. ( -19.94)
>consensus
AGCCCAUCCCAUGAUAACAAUCCAUUUGUAUGGGUCCCAAUAAAUUACCCAUAAAAAUCAUCUUCCCCAUUUUUAAAGACUCGCCAAUGGUGGGCCGAAAAAAAA_AAAAG________A
.(((((..((((...........((((.(((((((...........))))))).))))..((((...........)))).......)))))))))......................... (-16.41 = -16.35 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:37 2006