Locus 4316

Sequence ID 2L_DroMel_CAF1
Location 12,353,470 – 12,353,566
Length 96
Max. P 0.554486
window6803

overview

Window 3

Location 12,353,470 – 12,353,566
Length 96
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 82.52
Mean single sequence MFE -29.55
Consensus MFE -14.66
Energy contribution -15.17
Covariance contribution 0.50
Combinations/Pair 1.19
Mean z-score -2.80
Structure conservation index 0.50
SVM decision value 0.04
SVM RNA-class probability 0.554486
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12353470 96 + 22407834
GGAUGAGGAGCGUAU--AUUGGGUGGCAGAGUGGGCGGAAGGUCGAGGCUG----CCAUCAAGUAGCUAAUGGUAAUUGCCAUUGCAUUAACGUUAUUAAUU
...(((..(((((.(--(((.((((((((..(((.(....).)))...)))----))))).))))((.((((((....))))))))....))))).)))... ( -34.40)
>DroSec_CAF1 177457 98 + 1
GGAUGAGGAGCGUAUAAAUUGGGUGGCAGAGUGGGCGGAAGGCCGAGGCUG----CCAUCAAGUAGCUAAUGGUAAUUGCCAUUGCAUUAACGUUAUUAAUU
...(((..(((((........((((((((..(((.(....).)))...)))----))))).....((.((((((....))))))))....))))).)))... ( -36.20)
>DroSim_CAF1 182437 98 + 1
GGAUGAGGAGCGUAUAAAUUGGGUGGCAGAGUGGGCGGAAGGUCGAGGCUG----CCAUCAAGUAGCUAAUGGUAAUUGCCAUUGCAUUAACGUUAUUAAUU
...(((..(((((........((((((((..(((.(....).)))...)))----))))).....((.((((((....))))))))....))))).)))... ( -33.30)
>DroEre_CAF1 176318 92 + 1
----GCGGGGCUUAU--ACUGGGUGGCGGAGUGGGCGGAAGGUCGAGGCUG----CCAUCAAGUAGCUAAUGAUAAUUGCCAUUGCAUUAAUGUUAUUAAUU
----(((((((...(--(((.((((((((..(((.(....).)))...)))----))))).))))...(((....)))))).))))................ ( -29.80)
>DroYak_CAF1 183704 92 + 1
----GUGGUGCUUAU--AUUGGGGGGCAGAGUGGGCGGAAGGUCGAGGCUG----CCAUCAAGUAGCUAAUGAUAAUUGCCAUUGCAUUAAUAUUAUUAAUU
----.....(((...--.((((..(((((..(((.(....).)))...)))----)).))))..)))((((((((..(((....)))....))))))))... ( -26.40)
>DroPer_CAF1 259774 84 + 1
GG--GAGGA-----------GGGUGG-----AUGGUGGAAGGUCGCAGCAGCAGCCCAUCGAGUGACUAAUGAUAAUUGGCAUUGCAUUAAGGUUAUUAAUU
..--...((-----------((((..-----.((.(((.....).)).))...)))).)).(((((((((((.((((....))))))))..))))))).... ( -17.20)
>consensus
GG__GAGGAGCGUAU__AUUGGGUGGCAGAGUGGGCGGAAGGUCGAGGCUG____CCAUCAAGUAGCUAAUGAUAAUUGCCAUUGCAUUAACGUUAUUAAUU
.....................((((((((..(((.(....).)))...)))....))))).(((((((((((.((((....)))))))))..)))))).... (-14.66 = -15.17 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:54 2006