Locus 3541

Sequence ID 3R_DroMel_CAF1
Location 9,579,893 – 9,579,987
Length 94
Max. P 0.751647
window5693

overview

Window 3

Location 9,579,893 – 9,579,987
Length 94
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.70
Mean single sequence MFE -32.25
Consensus MFE -22.47
Energy contribution -23.42
Covariance contribution 0.95
Combinations/Pair 1.27
Mean z-score -1.50
Structure conservation index 0.70
SVM decision value 0.48
SVM RNA-class probability 0.751647
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9579893 94 + 27905053
AGGUGUACCAGCAAUAAUUCUCUGCCCUUAAGCAGUGAAAACGAGUCCGUGGAAUUCCGCCAGAGAUCGGACUCCGAAUUGGAUCGCCAGCGUU
.((((..((((......(((.((((......)))).)))...((((((((((....))))..(....)))))))....))))..))))...... ( -30.80)
>DroGri_CAF1 69767 83 + 1
C--C---CCAGCAACAAUUCAUUGCC------CAGUGAAAAUGAAUCCGUGGAGUUUCGUCAGCGUUCCGACUCGGAGCUGGAGCGCCAGCGUU
.--.---(((((.....((((((...------.))))))......((((.(..(...((....))...)..).)))))))))((((....)))) ( -23.80)
>DroEre_CAF1 59023 94 + 1
AGGUGUACCAGCAACAAUUCCCUGCCCUUAAGCAGUGAAAAUGAGUCCGUGGAAUUCCGCCAGAGAUCGGACUCCGAAUUGGAUCGCCAGCGUU
.((((..((((......(((.((((......)))).)))...((((((((((....))))..(....)))))))....))))..))))...... ( -29.70)
>DroYak_CAF1 56752 94 + 1
AGGUGUACCAGCAAUAAUUCCCUGCCCUUAAGCAGUGAAAAUGAGUCCGUGGAAUUCCGCCAGAGGUCGGACUCCGAGUUGGAUCGCCAGCGUU
.((((..(((((.....(((.((((......)))).)))...((((((((((....))))..(....)))))))...)))))..))))...... ( -33.80)
>DroMoj_CAF1 66585 88 + 1
CGGCCGCCCAGCAACAACUCGCUGCC------CAGCGAGAGCGAGUCCGUUGAGUUCCGCCAGCGCUCCGACUCCGAGCUGGAGCGCCAGCGCU
.(((.(((((((.....((((((...------.)))))).(.((((((((((.(.....))))))....))))))..))))).)))))...... ( -38.60)
>DroAna_CAF1 64580 94 + 1
AGGUGCACCAGCAACAACUCUCUGCCCCUGAGCAGCGAGAACGAAUCUGUGGAGUUCCGGCAGAGAUCGGACUCGGAGCUGGAUCGCCAGCGAU
.((((..(((((.........((((......))))((((..(((.(((((((....)).)))))..)))..))))..)))))..))))...... ( -36.80)
>consensus
AGGUGUACCAGCAACAAUUCCCUGCCCUUAAGCAGUGAAAACGAGUCCGUGGAAUUCCGCCAGAGAUCGGACUCCGAGCUGGAUCGCCAGCGUU
.((((..(((((.....(((.((((......)))).)))...((((((((((....))))........))))))...)))))..))))...... (-22.47 = -23.42 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:47 2006