Locus 3307

Sequence ID 3L_DroMel_CAF1
Location 9,695,497 – 9,695,610
Length 113
Max. P 0.522828
window5144

overview

Window 4

Location 9,695,497 – 9,695,610
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 87.88
Mean single sequence MFE -30.58
Consensus MFE -22.71
Energy contribution -23.99
Covariance contribution 1.28
Combinations/Pair 1.11
Mean z-score -1.54
Structure conservation index 0.74
SVM decision value -0.02
SVM RNA-class probability 0.522828
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9695497 113 - 23771897
AGCAAAGCCAUCGCUGAGGAGAAAUCCGUACAUCCACCUGUUCCAGCUGCGAGUAAGCACAUAACACGGAAGACCAAACAGGUUUUUUGUGUUGACUCAUCGGAUGAGGAGAA
.((..(((....)))..(((....))))).......(((..(((.(((.......)))...((((((((((((((.....)))))))))))))).......)))..))).... ( -34.20)
>DroSec_CAF1 2088 113 - 1
AGCAAAGCCAUCGCUGAGGAGAAAUCCGUACAUCCAUCUGUUCCAGCUGCGAGUAAACACAUAACACGAAAGACCAAACAGGUUUUUUGUGUCGACUCAUCGGAUGAGGAGAA
........((((((((.(((....)))(.(((......))).)))))...((((.........((((((((((((.....))))))))))))..))))....))))....... ( -31.40)
>DroSim_CAF1 2222 113 - 1
AGCAAACCCAUCGCUGAGGAGAAAUCCGUACAUCCACCUGUUCCAGCUGCGAGUAAACACAUAACACGAAAGACCAAACAGGUUUUUUGUGUCGACUCAUCGGAUGAAGAGAA
........((((((((.(((....)))(.(((......))).)))))...((((.........((((((((((((.....))))))))))))..))))....))))....... ( -31.40)
>DroEre_CAF1 2233 113 - 1
AGCAAAACCAUCCCACAGGAGAUAUCAGUACAACCACCUGUUCCAGUGGCGACUAAACGCAUAACACGGAGAACCAAACAGGUUUAUUGUGUUGACUCGUCGGAUGAGGAGAA
........(((((.((..(((...(((((((((..(((((((...((.(((......)))...))..((....)).)))))))...)))))))))))))).)))))....... ( -29.00)
>DroYak_CAF1 2229 113 - 1
AGCAAAAUUAUUCCAGAGGAGAUAGCCGUACAACCACCUGUUCGAGCUGCGAGUAAGCCCGUAACAAGGAGAACCAAACAGGUUUAUUGUGUUGACUCGUCGGAUGAGGAGAA
...........(((.((.(((.((((...((((...((((((((.(((.......))).)).))).))).(((((.....))))).)))))))).))).)))))......... ( -26.90)
>consensus
AGCAAAACCAUCGCUGAGGAGAAAUCCGUACAUCCACCUGUUCCAGCUGCGAGUAAACACAUAACACGGAAGACCAAACAGGUUUUUUGUGUUGACUCAUCGGAUGAGGAGAA
.................(((....)))...(((((....((.......))((((.......((((((((((((((.....))))))))))))))))))...)))))....... (-22.71 = -23.99 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:28 2006