Locus 4017

Sequence ID 2L_DroMel_CAF1
Location 11,663,568 – 11,663,664
Length 96
Max. P 0.511058
window6332

overview

Window 2

Location 11,663,568 – 11,663,664
Length 96
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 85.88
Mean single sequence MFE -28.88
Consensus MFE -23.05
Energy contribution -23.19
Covariance contribution 0.14
Combinations/Pair 1.15
Mean z-score -1.72
Structure conservation index 0.80
SVM decision value -0.04
SVM RNA-class probability 0.511058
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11663568 96 + 22407834
AAAGGAAAAAUGCGAGGCUGAGGCCAUGGAGGCGCAUACGUAUUGUGAGGAAAUAUGUAAUUAAAUUUUUCUCCCGUAUGUCAUGUCU-UCGCCUCG
............((((((.((((((.....)))((((((((((.(.(((((((.............)))))))).)))))).))))))-).)))))) ( -29.82)
>DroSec_CAF1 124888 96 + 1
AGAGGAAAAAUGCGAGGCUGAGGCCAUGGAGGCGCAUACGUAUUGUGAGGAAAUAUGUAAUUAAAUUUUUCUCCCGUAUGUCAUGUCU-UCGCCUCG
............((((((.((((((.....)))((((((((((.(.(((((((.............)))))))).)))))).))))))-).)))))) ( -29.82)
>DroSim_CAF1 122701 96 + 1
AAAGGAAAAAUGCGAGGCUGAGGCCAUGGAGGCGCAUACGUAUUGUGAGGAAAUAUGUAAUUAAAUUUUUCUCCCGUAUGUCAUGUCU-UCGCCUCG
............((((((.((((((.....)))((((((((((.(.(((((((.............)))))))).)))))).))))))-).)))))) ( -29.82)
>DroEre_CAF1 146374 96 + 1
GAUGGAAAAAUGCGAGGCUGAGGCCGUGGAGGCGCAUACGUAUUGUGAGGAAAUAUGUAAUUAAAUUUUUCUCCCGUAUGUCAUGUCU-UCGCCUCG
............((((((.((((((.....)))((((((((((.(.(((((((.............)))))))).)))))).))))))-).)))))) ( -30.52)
>DroYak_CAF1 120680 96 + 1
GCAGGAAAAGUGCGAGGCUGGGGCCAUGGAGGCGCAUACGUAUUGUGAGGAAAUAUGUAAUUAAAUUUUUCUCCCGUAUGUCAUGUCU-UCGCCUCG
(((.......)))(((((..(((((.....)))((((((((((.(.(((((((.............)))))))).)))))).))))))-..))))). ( -30.22)
>DroPer_CAF1 116902 84 + 1
------------GGUGGG-GGGGACAAUGGGGCGUAUACGUAUUCCGAGGAAAUGUGUAAUUAAAUUUUUCUUUCGCUUGUCAUGGCCGGUGCCCCG
------------......-(....)...(((((.(((((((.(((....))))))))))................(((.((....)).)))))))). ( -23.10)
>consensus
AAAGGAAAAAUGCGAGGCUGAGGCCAUGGAGGCGCAUACGUAUUGUGAGGAAAUAUGUAAUUAAAUUUUUCUCCCGUAUGUCAUGUCU_UCGCCUCG
...............(((....)))...(((((((((((((((.(.(((((((.............)))))))).)))))).))).....)))))). (-23.05 = -23.19 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:14 2006