Locus 5725

Sequence ID 2L_DroMel_CAF1
Location 16,299,303 – 16,299,393
Length 90
Max. P 0.632776
window9068

overview

Window 8

Location 16,299,303 – 16,299,393
Length 90
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 76.95
Mean single sequence MFE -29.75
Consensus MFE -13.47
Energy contribution -15.67
Covariance contribution 2.20
Combinations/Pair 1.40
Mean z-score -2.05
Structure conservation index 0.45
SVM decision value 0.20
SVM RNA-class probability 0.632776
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16299303 90 + 22407834
CAACAUCCUUAAUUCCUGCUGGAAAGCGGGAGGGCGCAAACCGA-----GGAAAUCGGCAUUUGGCCAACUUAAUCGAAAUGAGAUCGCUGAUGU
..(((((.....((((((((....))))))))(((.((((((((-----.....))))..))))))).......................))))) ( -29.10)
>DroPse_CAF1 14376 84 + 1
CAACCUGCUUGAGCCCUGCUGGAAGGCAGGCG-CCGCAAAAAGCCUACGAGCAACAGGUGUUGGC----------CGAAAUGAGAUCGCUGCGGU
..(((((((((.((((((((....)))))).)-).((.....))...)))))...))))....((----------((...((....))...)))) ( -26.50)
>DroSec_CAF1 14715 90 + 1
CAACAUCCUAAAUUCCUGCUGGAAAGCAGGAGUCCGCAAGCCGC-----GGAAAUCGGCGUUUGCGCCACUCGAUCGAAAUGAGAUCGCAGAUUU
............((((((((....))))))))(((((.....))-----)))....((((....)))).(((((((.......))))).)).... ( -36.20)
>DroSim_CAF1 14727 90 + 1
CAACAUCCUAAAUUCCUGCUGGAAAGCAGGAGUCCGCAAGCCGC-----GGAAAUCGGCGUUUGCGCCACUCGAUCAAAAUGAGAUCGCAGAUGU
..(((((.....((((((((....))))))))(((((.....))-----)))....((((....))))...(((((.......)))))..))))) ( -36.90)
>DroEre_CAF1 15311 90 + 1
CAACGUCCUAAAUUCCUGCUGGAGAGCGGGAUGUCGCAAAAUGC-----AGAAAUCGGCGUUUGCCCAACUCGAUCGUAAUGAGAUCGCAGAUGU
..(((((((...((((....))))...))))))).(((((.(((-----.(....).)))))))).((.(((((((.......))))).)).)). ( -26.10)
>DroYak_CAF1 14316 90 + 1
CAACAUCCUAAAUUACUGCUGGAAAGCGGGAAGUCGCAAAACGC-----GGAAAUCGGCGCUUGCCCAACUCGAUAGGAAUGAGAUCGCAGUUGU
((((.(((((.....(((((....)))))((.((.((((..(((-----.(....).))).))))...))))..))))).((......)))))). ( -23.70)
>consensus
CAACAUCCUAAAUUCCUGCUGGAAAGCAGGAGGCCGCAAAACGC_____GGAAAUCGGCGUUUGCCCAACUCGAUCGAAAUGAGAUCGCAGAUGU
............((((((((....)))))))).........................((((((((....((((.......))))...)))))))) (-13.47 = -15.67 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:07 2006