Locus 5322

Sequence ID 2R_DroMel_CAF1
Location 17,244,140 – 17,244,248
Length 108
Max. P 0.881352
window8502

overview

Window 2

Location 17,244,140 – 17,244,248
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.49
Mean single sequence MFE -22.89
Consensus MFE -18.62
Energy contribution -18.74
Covariance contribution 0.12
Combinations/Pair 1.25
Mean z-score -1.94
Structure conservation index 0.81
SVM decision value 0.92
SVM RNA-class probability 0.881352
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17244140 108 - 20766785
AGAGCCGGAA------------AAAGAAUCUCCAGACGGGGAAAGCGUUAAGGAAUAUAAAUUAUGGAGACAGCCGGCUAAGGAACAGGUGAAAGGGUGGACAGCAAUGGGAAGUGUUUA
..((((((..------------......(((((....)))))......................((....)).))))))...(((((.........((.....)).........))))). ( -22.17)
>DroSim_CAF1 46795 108 - 1
AGAGCCGGAA------------AAAGAAUCCCCAGACGGGGAAAGCGUUAAGGAAUAUAAAUAAUGGAGACAGCCGGCUAAGGAACAGGUGAAAGGAUGGACAGCAAUGGGAAGUGUUUA
..((((((..------------......(((((....)))))......................((....)).)))))).............(((.((...((....))....)).))). ( -24.80)
>DroEre_CAF1 46136 108 - 1
AGGGCCGGAA------------AAUGAAUCCCCAGACGGGGAAAGCGUUAAGGAAUAUAAAUUAUGGAGACAGCCGGCUAAGGAACAGGUGAAAGGAUGGACAGCAAUGGGAAGUGUUUC
..((((((..------------((((..(((((....)))))...))))...............((....)).))))))...........((((.(.....((....)).....).)))) ( -27.50)
>DroYak_CAF1 45381 108 - 1
AGAGCCGGAA------------AAAGAAUCCCCAGACGGGGAAAGCGUUAAGGAAUAUAAAUUAUGGAGACAGCCGGCUAAGGAACAGGUGAAAGGAUGGACAGCAAUGGGAAGUGUUUA
..((((((..------------......(((((....)))))......................((....)).)))))).............(((.((...((....))....)).))). ( -24.80)
>DroAna_CAF1 43036 120 - 1
AAAACCCAAAUAAAACAUAAAAUAGGAAACCCAAGGAAAAGAAAAUGUUGAGCAAAAUAAAUUAUGGAGACAGCGGGUUAUGGAGCAGGUAAAUGGAUGGACAGUAAAGGGAAGUGUUUA
....(((....................(((((.............((((......)))).....((....))..)))))..............((......)).....)))......... ( -15.20)
>consensus
AGAGCCGGAA____________AAAGAAUCCCCAGACGGGGAAAGCGUUAAGGAAUAUAAAUUAUGGAGACAGCCGGCUAAGGAACAGGUGAAAGGAUGGACAGCAAUGGGAAGUGUUUA
..((((((....................(((((....)))))......................((....)).))))))..................((((((.(........))))))) (-18.62 = -18.74 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:04 2006