Locus 3372

Sequence ID 3R_DroMel_CAF1
Location 9,104,557 – 9,104,648
Length 91
Max. P 0.514824
window5423

overview

Window 3

Location 9,104,557 – 9,104,648
Length 91
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 72.67
Mean single sequence MFE -20.96
Consensus MFE -13.38
Energy contribution -12.75
Covariance contribution -0.63
Combinations/Pair 1.33
Mean z-score -1.41
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.514824
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9104557 91 + 27905053
AAUGGCUGUUUACUCAGCAAGCUGUACAAAAAACACCCAAAAGAAUCGAGA-------------------AAUUAUUGGCCCAUUU------CAUGAGUCGCUU----GGCCAAAUAUUU
..(((.(((((...(((....)))......))))).)))............-------------------.....((((((.....------............----))))))...... ( -15.43)
>DroSim_CAF1 15384 91 + 1
AAUGGCUGUUUACUCAGCCAGCUCUACAAAAAACACCCAAAAGAAUAGAGC-------------------CAUUAUUGGCCCCUUU------CAUGAGUCGCUU----GGCCAAAUAUUU
..((((((......))))))((((((...................))))))-------------------.....((((((.(((.------...)))......----))))))...... ( -22.41)
>DroYak_CAF1 14630 91 + 1
AAUUGCUGUUUACUCAGCGAGCUCUACAACAAACACCCAAAAGAAUCGAGC-------------------CAUUAUUGGCCCAUUU------CAUGAGCCGGUU----GGCCAAAUAUUU
..((((((......))))))...........................(.((-------------------((..((((((.(((..------.))).)))))))----))))........ ( -20.20)
>DroAna_CAF1 17351 120 + 1
AAUGGCUGUUUGCCCAGUUAGCUCUAAACAAAAAUUCCAAAAGAACCGAAAGAGCCGAGGCGGCCAAGCCAAUAAUUGGCUCAUCUUUAUCGCAUAUGUCACUUUGCUAGCCAAAUAUUU
...(((.....)))..((((((.....(((....(((.....)))......((((((((((......))).....)))))))..............)))......))))))......... ( -25.80)
>consensus
AAUGGCUGUUUACUCAGCAAGCUCUACAAAAAACACCCAAAAGAAUCGAGA___________________AAUUAUUGGCCCAUUU______CAUGAGUCGCUU____GGCCAAAUAUUU
..((((((......)))))).......................................................((((((...........................))))))...... (-13.38 = -12.75 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:28 2006