Locus 1280

Sequence ID X_DroMel_CAF1
Location 3,809,460 – 3,809,568
Length 108
Max. P 0.609047
window2052

overview

Window 2

Location 3,809,460 – 3,809,568
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 90.49
Mean single sequence MFE -37.57
Consensus MFE -30.79
Energy contribution -30.43
Covariance contribution -0.36
Combinations/Pair 1.31
Mean z-score -1.98
Structure conservation index 0.82
SVM decision value 0.15
SVM RNA-class probability 0.609047
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3809460 108 + 22224390
GCGCGUCUUCAACACGGUGAGCUUCUGACCCAGUGUCUUAAGCGACUCCAUGGAGUCACUCAUGCUGGACUUGUGUCGCUCAUCCUGGGAUUUCCUUAAGGCGCGUUC
(((((((((...((.(((((((........((((((....((.(((((....))))).)).))))))(((....)))))))))).))((....))..))))))))).. ( -42.40)
>DroSec_CAF1 8318 108 + 1
GCGCGUCUUCAACACAGUGAGCUUCUGACCCAGUGUCUUAAGCGAUUCCACGGAGUCACUCAUGCUGGACUUGUGUCGCCCAUCCUGGGAUUUCCUUAAGGCGCGUUC
(((((((((.....((((..((((..(((.....)))..))))(((((....)))))......))))(((....))).(((.....)))........))))))))).. ( -36.50)
>DroSim_CAF1 8597 108 + 1
GCGCGUCUUCAACACAGUGAGCUUCUGACCCAGUGUCUUAAGCGAUUCCAUGGAGUCACUCAUGCUAGACUUGUGUCGCCCAUCCUGGGAUUUCCUUAAGGCGCGUUC
(((((((((..(((((((..((((..(((.....)))..))))(((((....)))))...........)).)))))..(((.....)))........))))))))).. ( -34.90)
>DroEre_CAF1 8343 108 + 1
GCGCGUCUUCAACACGGUGAGCUUCUGACCCAGUGUCUUGAGCGACUCCAUGGAGUCACUCAUGCUGGACUUGUGUCGCCCAUCCUGGGAUUUCCUUAAGGCGCGUUC
(((((((((...((.((((.((........((((....((((.(((((....))))).)))).))))(((....))))).)))).))((....))..))))))))).. ( -41.70)
>DroYak_CAF1 8422 108 + 1
GCGCGUCUUUAACACGGUGAGCUUCUGACCCAAUGUCUUAAGCGAUUCCAUGGAGUCACUCAUGCUGGACUUGUGUCGCCCAUCCUGGGAUUUCCUCAAGGCGCGUUC
(((((((((.....((((..((((..(((.....)))..))))(((((....)))))......))))(((....))).(((.....)))........))))))))).. ( -35.90)
>DroAna_CAF1 8820 108 + 1
UCGCGUUUUCAGAACGGUGAGCUUCUGGCCCAGAUUCCUCAGCGACUCCAUCGAGUCGCUCAUACUGGACUUGUGCUUUCCAUCCUGCGACUUCCUCAGGGCUCGUUC
...........((((((.((((....((.((((.......((((((((....))))))))....)))).))...)))).)).(((((.(.....).)))))...)))) ( -34.00)
>consensus
GCGCGUCUUCAACACGGUGAGCUUCUGACCCAGUGUCUUAAGCGACUCCAUGGAGUCACUCAUGCUGGACUUGUGUCGCCCAUCCUGGGAUUUCCUUAAGGCGCGUUC
(((((((((.....(((((.((((..(((.....)))..))))(((((....))))).....)))))(((....))).(((.....)))........))))))))).. (-30.79 = -30.43 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:39 2006