Locus 3618

Sequence ID X_DroMel_CAF1
Location 9,674,740 – 9,674,857
Length 117
Max. P 0.564659
window5921

overview

Window 1

Location 9,674,740 – 9,674,857
Length 117
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 77.89
Mean single sequence MFE -24.60
Consensus MFE -16.57
Energy contribution -17.76
Covariance contribution 1.19
Combinations/Pair 1.05
Mean z-score -1.58
Structure conservation index 0.67
SVM decision value 0.06
SVM RNA-class probability 0.564659
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9674740 117 + 22224390
AUACGAAAUUCCAAAUGG-AACUCAGCAUCGAAGCUGAAAUUGAAAACGCCGAAAAGGAAGCCCGAGGAGAUGGCUGCUGACAAUUAGCACGCAUUGGCCAUAACAAUAAACGGCAAA
...(((..((((....))-)).(((((......)))))..))).....((((....((....))..((.....((((((((...)))))).)).....))...........))))... ( -29.40)
>DroSim_CAF1 21871 118 + 1
AUACGAAAUUCCAAAUGGGAGCUCAGCAUCGAAGCUGAAAUUGAAAACGCCGAAACGGAAGCCCGAGGAGAUGGCUGCUGACAAUUAGCACGCAUUGGCCAUAACAAUAAACGGCAAA
...(((..((((....))))..(((((......)))))..))).....((((...(((....))).((.....((((((((...)))))).)).....))...........))))... ( -31.30)
>DroEre_CAF1 17272 95 + 1
AUACGAA--------------CUCA---------GUGAAAUUGAAAAGGCCGAAAUGGAAGCCCAACGUGAUGGCUGCUGACAAUUAGCACGCAUUGGCCAUAACAAUAAACGGCAAA
...((..--------------.(((---------((...)))))...((((((..(((....)))........((((((((...)))))).)).))))))...........))..... ( -21.50)
>DroYak_CAF1 21502 91 + 1
GCUGAA------------------A---------UUGAAAUUGAAAACGUCGCAAAGGAAGCCCAAGGAGAUGGCUGCUGACAAUUAGCACGCAUUGGCCAUAACAAUAAACGGAAAA
((..(.------------------.---------.............((((.(...((....))...).))))((((((((...)))))).)).)..))................... ( -16.20)
>consensus
AUACGAA______________CUCA_________CUGAAAUUGAAAACGCCGAAAAGGAAGCCCAAGGAGAUGGCUGCUGACAAUUAGCACGCAUUGGCCAUAACAAUAAACGGCAAA
......................(((((......)))))..........((((....((....))......(((((((((((...))))).......)))))).........))))... (-16.57 = -17.76 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:52 2006