Locus 3669

Sequence ID 3L_DroMel_CAF1
Location 10,727,990 – 10,728,103
Length 113
Max. P 0.736036
window5732

overview

Window 2

Location 10,727,990 – 10,728,103
Length 113
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 88.46
Mean single sequence MFE -20.64
Consensus MFE -16.84
Energy contribution -17.32
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.82
SVM decision value 0.44
SVM RNA-class probability 0.736036
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10727990 113 + 23771897
UAACAUCC-CUCGUUAUGCUCGAAAUUCCCUUAUUUGUUUACCCACGUAUAAAAUGCGUUUUGCAUUCGAAUUAUUUAUAAUUUCCCCAACAAAUUAUGAAA-GGGGUGAAACCA
...(((((-((((..((((...((((......))))........((((((...))))))...)))).)))....((((((((((.......)))))))))).-))))))...... ( -22.40)
>DroSec_CAF1 61787 111 + 1
CAACAUCCCCUCGUUAUACUCGAAAUUCCAUUAUUUGUUUACCCACGUAUAAAAUGCGUUUUGCGUUAGAAUUAUUUAUAAUUUCCUCAACAAAUUAUGAAA-GGGGUGGAA---
...((((((.(((.......)))(((((..((((.(((......))).))))(((((.....))))).))))).((((((((((.......)))))))))).-))))))...--- ( -20.20)
>DroSim_CAF1 64368 111 + 1
CAACAUCCCCUCGUUAUACUCGAAAUUCCCUUAUUUGUUUACCCACGUAUAAAAUGCGUUUUGCGUUAGAAUUAUUUAUAAUUUCCUCAAAAAAUUAUGAAA-GGGGUGAAA---
...((((((.(((.......)))(((((..((((.(((......))).))))(((((.....))))).))))).((((((((((.......)))))))))).-))))))...--- ( -19.90)
>DroEre_CAF1 66604 114 + 1
CAACAUCCCCC-UUUACUUUCGAAAUUCCCUUAUUUGUUUACCCACGUAUUAAAUGCGUUUUGCGUUGGAAUUAUUUAUAAUUUCCUCAACAAAUUAUGAAAAGGAGUGUCAAAA
...........-.........((.(((((............((.(((((............))))).)).....((((((((((.......))))))))))..))))).)).... ( -17.30)
>DroYak_CAF1 76386 115 + 1
CAACACCCCUUUUUUAUUUUCGAAAUUCCCUUAGUUGUUUACUCACGUAUAAAAUGCGUUUUGCGUUAGAAUUAUUUAUAAUUUCCUCAACAAAUUAUGAAAAGGGGUGGCAACA
...((((((((............(((((...........(((....)))...(((((.....))))).))))).((((((((((.......))))))))))))))))))...... ( -23.40)
>consensus
CAACAUCCCCUCGUUAUACUCGAAAUUCCCUUAUUUGUUUACCCACGUAUAAAAUGCGUUUUGCGUUAGAAUUAUUUAUAAUUUCCUCAACAAAUUAUGAAA_GGGGUGAAA__A
...((((((..............(((((..((((.(((......))).))))(((((.....))))).))))).((((((((((.......))))))))))..))))))...... (-16.84 = -17.32 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:51 2006