Locus 2209

Sequence ID 3L_DroMel_CAF1
Location 6,090,388 – 6,090,544
Length 156
Max. P 0.916775
window3423 window3424

overview

Window 3

Location 6,090,388 – 6,090,504
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -35.23
Consensus MFE -31.37
Energy contribution -31.70
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.74
Structure conservation index 0.89
SVM decision value 1.11
SVM RNA-class probability 0.916775
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6090388 116 - 23771897
UCCAUUGACCAAUUUAUCAAA----UAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGCAACUCUUUUUAAUGGAUUUUUGCCUGAUUUCAGGCAGGGC
((((((((.............----...((((((.((...((((((((....)))))))).)).)))))).((.....))........)))))))).(((((((((....))))))))). ( -38.20)
>DroSec_CAF1 38732 120 - 1
UCCAUUGACCAAUUUAUCAAAUCCAUAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGCAACUCUUUUUAAUGGAUUUUUGCCGGAUUUCAGUCAGGGC
.((.(((((.........((((((....((((((.((...((((((((....)))))))).)).))))))(((((.((.((...........))))...)))))))))))..))))))). ( -32.50)
>DroSim_CAF1 40045 120 - 1
UCCAUUGACCAAUUUAUCAAAUCCAUAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGCAACUCUUUUUAAUGGAUUUUUGCCGGAUUUCAGGCAGGGC
........((........((((((((..((((((.((...((((((((....)))))))).)).)))))).((.....))...........)))))))).((((........)))))).. ( -35.00)
>consensus
UCCAUUGACCAAUUUAUCAAAUCCAUAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGCAACUCUUUUUAAUGGAUUUUUGCCGGAUUUCAGGCAGGGC
((((((((....................((((((.((...((((((((....)))))))).)).)))))).((.....))........)))))))).(((((((........))))))). (-31.37 = -31.70 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 6,090,428 – 6,090,544
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.11
Mean single sequence MFE -29.73
Consensus MFE -26.23
Energy contribution -26.90
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.88
SVM decision value 0.87
SVM RNA-class probability 0.870871
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6090428 116 - 23771897
GCCAUUUAUGCCAAACGGUUUUGUGAGAAAAAAGAACACAUCCAUUGACCAAUUUAUCAAA----UAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGC
........((((....((((..(((.((............))))).))))...........----...((((((.((...((((((((....)))))))).)).))))))))))...... ( -30.00)
>DroSec_CAF1 38772 119 - 1
GCCAUUUAUGCCAAACGGAUUUGUGAGAAA-AAGAACACUUCCAUUGACCAAUUUAUCAAAUCCAUAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGC
(((..(((((......(((..(((......-....)))..))).((((........))))...)))))((((((.((...((((((((....)))))))).)).)))))))))....... ( -31.90)
>DroSim_CAF1 40085 112 - 1
--------UGCCAAACAGAUUUGUGAGAAAAAAGAACACUUCCAUUGACCAAUUUAUCAAAUCCAUAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGC
--------((((........(((((.((...(((....)))...((((........)))).)))))))((((((.((...((((((((....)))))))).)).))))))))))...... ( -27.30)
>consensus
GCCAUUUAUGCCAAACGGAUUUGUGAGAAAAAAGAACACUUCCAUUGACCAAUUUAUCAAAUCCAUAAGGGAAACGCCCACCGUCGAAACCCUUUGACGGAGCCUUUCUCGGCAACUCGC
........((((....(((..(((...........)))..))).((((........))))........((((((.((...((((((((....)))))))).)).))))))))))...... (-26.23 = -26.90 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:54 2006