Locus 673

Sequence ID 2L_DroMel_CAF1
Location 1,972,590 – 1,972,688
Length 98
Max. P 0.741761
window1103

overview

Window 3

Location 1,972,590 – 1,972,688
Length 98
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 74.92
Mean single sequence MFE -34.80
Consensus MFE -22.70
Energy contribution -23.70
Covariance contribution 1.00
Combinations/Pair 1.16
Mean z-score -1.65
Structure conservation index 0.65
SVM decision value 0.45
SVM RNA-class probability 0.741761
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1972590 98 + 22407834
UCCAGGUGAG-CUGCUGCGAGCA---AAAGGCCCGGGCAAAAGGCUCAACGGGUGGGUAAAUAGAAUCCAUCUAUGUGUGCAGUAUGUGUU----CGCGCACCGAU
....((((.(-(((((((((((.---....((....)).....))))...((((((((.......))))))))......))))))......----.)).))))... ( -34.81)
>DroSim_CAF1 19037 98 + 1
ACCAGGUGAG-CUGCUGCGAGCA---AAAGGCCCGGGCAAAAGGCUCAACGGGUGGGUAAAUAGAGCCCAUCUAUGUGUGCAGCAUGUGUU----CGGGCACCGAU
....(((..(-((......))).---....(((((((((....((.((..((((((((.......))))))))...)).))......))))----))))))))... ( -38.70)
>DroEre_CAF1 24142 78 + 1
UCCAGGUAACUCACCUGCGA--------GUUCCCGGGCAAAAGGCUCAACGGGUGGGUAAAUAGAGCCCAUCUAUGUGUGCAGCAG--------------------
.((.((.(((((......))--------))))).))((.....((.((..((((((((.......))))))))...)).)).))..-------------------- ( -26.10)
>DroYak_CAF1 22204 106 + 1
UCCGGGCAACUCACCUGCGAGCUCCCUAGUUCCCGGGCAAAGGGCUCAACGGGUGGGUAAAUAGAGCCCAUCUAUGUAUGCAGUAUGUGUUCGUUCGGGCGCGGAU
((((.((.(((((((((.((((((....(((....)))...))))))..))))))))).....((((.(((...((....))..))).))))......)).)))). ( -39.60)
>consensus
UCCAGGUAAC_CACCUGCGAGCA___AAAGGCCCGGGCAAAAGGCUCAACGGGUGGGUAAAUAGAGCCCAUCUAUGUGUGCAGCAUGUGUU____CGGGCACCGAU
.............((((((.((............((((.....))))...((((((((.......))))))))..)).))))))..(((((......))))).... (-22.70 = -23.70 +   1.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:34 2006