Locus 2879

Sequence ID 3L_DroMel_CAF1
Location 8,222,798 – 8,222,906
Length 108
Max. P 0.972695
window4495

overview

Window 5

Location 8,222,798 – 8,222,906
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.35
Mean single sequence MFE -25.78
Consensus MFE -22.42
Energy contribution -23.32
Covariance contribution 0.89
Combinations/Pair 1.14
Mean z-score -2.48
Structure conservation index 0.87
SVM decision value 1.70
SVM RNA-class probability 0.972695
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8222798 108 + 23771897
AAAUC-CAAACAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUACACAGCCUUUUUAAGGCCAUCCUGAUCCUAUAUGUCAUAAGAGGUGAGUAU-----------
...((-((.((((.....))))..))))........((((((((.......(((((......((((.....))))......)))))......((....)).))))))))----------- ( -22.40)
>DroVir_CAF1 58798 108 + 1
AAAUA-CACACAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUACACAGCCUUUUUAAGGCUGUCCUGAUCCUGUACAUCAUACGAGGUGAGUUC-----------
.....-(((((((.....))))((((.....)))).)))(((((.......(((((...(((((((.....)))))))...)))))((((.....))))..)))))...----------- ( -24.70)
>DroGri_CAF1 54618 108 + 1
AAACA-CACACAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUACACAGCCUUUUUAAGGCUGUCCUGAUCCUGUACAUCAUCCGAGGUGAGUAG-----------
..((.-(((((((.....))))..((((.((((....))))..........(((((...(((((((.....)))))))...))))).........))))..))).))..----------- ( -27.20)
>DroWil_CAF1 57656 119 + 1
AAAUC-CACACAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUUUACAGCCUUUUUAAGGCUGUCCUGAUCCUGUAUGUCAUACAAGGUGAGUAACCAAAUAUUUC
...((-((.((((.....))))..)))).........(((((((.......(((((...(((((((.....)))))))...)))))(((((...)))))..)))))))............ ( -30.30)
>DroMoj_CAF1 55273 108 + 1
AAAUU-CACACAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUACACGGCCUUUUUAAGGCUGUCCUGAUCCUGUACAUCAUACGAGGUGAGUAC-----------
...((-((.((((.....))))..))))........((((((((.......(((((...(((((((.....)))))))...)))))((((.....))))..))))))))----------- ( -27.50)
>DroPer_CAF1 47334 109 + 1
AAAUCCCAGAUAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUACAUAGCCUUUUUAAGGCCGUCCUGAUCCUGUAUGUCAUACGAGGUGAGUAU-----------
...(((...((((.....))))...)))........((((((((.......(((((...(..((((.....))))..)...)))))(((((...)))))..))))))))----------- ( -22.60)
>consensus
AAAUC_CACACAUAAAAAAUGUAAUGGAAAGCAUUAGUGCUCAUAAAAAAUGGAUUUACACAGCCUUUUUAAGGCUGUCCUGAUCCUGUACAUCAUACGAGGUGAGUAC___________
.................(((((........))))).((((((((.......(((((...(((((((.....)))))))...)))))((((.....))))..))))))))........... (-22.42 = -23.32 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:00 2006