Locus 3656

Sequence ID 3R_DroMel_CAF1
Location 9,885,361 – 9,885,480
Length 119
Max. P 0.856555
window5874

overview

Window 4

Location 9,885,361 – 9,885,480
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 95.27
Mean single sequence MFE -32.12
Consensus MFE -29.80
Energy contribution -30.20
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.30
Structure conservation index 0.93
SVM decision value 0.81
SVM RNA-class probability 0.856555
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9885361 119 + 27905053
UUCGUUUUUCGCGCCGACCCCAAAAACGUUAGUAAUGCAAAUCGAUUGCGUUUGCGAAGUCAGAUGAUCCCAUCCAUGAUUUCCAUGCGUCAGUUGUCCCAGCUGUCAAUCGAAGAUCG
..(((((((.(........).))))))).............((((((((((.((.(((((((((((....))))..))))))))).))).((((((...)))))).)))))))...... ( -28.70)
>DroSec_CAF1 88966 118 + 1
UUAGAUUUUCGCGCUGACCCA-AAAACGUUAGUAAUGCAAAUCGAUUGCGUUUGCGAAGUCAGAUGAUCGCAUCCAAGAUUUCCAUGCGUCAGUUGUCCCAGCUGUCAAUCGAAGAUCG
...(((((((((((((((...-.....))))))...)).....((((((((.((.((((((.((((....))))...)))))))).))).((((((...)))))).)))))))))))). ( -34.80)
>DroSim_CAF1 92431 118 + 1
UUAGAUUUUCGCGCUGACCCC-AAAACGUUAGUAAUGCAAAUCGAUUGCGUUUGCGAAGUCAGAUGAUCGCAUCCAAGAUUUCCAUGCGUCAGUUGUCCCAGCUGUCAAUCGAAGAUCG
...(((((((((((((((...-.....))))))...)).....((((((((.((.((((((.((((....))))...)))))))).))).((((((...)))))).)))))))))))). ( -34.80)
>DroEre_CAF1 89881 118 + 1
UCAGAUUUUCGCGCUGACCCC-AAAACAUUAGUAAUGCAAAUCGAUUGCGUUUGCGAAGUCAGAUGAUCGCAUCCAAGAUUUCCAUGCGUCAGUUGUCCCAGCUGUCAAACGAAGAUCG
...((((((((.((((.....-.........(((((((((.....))))).))))((((((.((((....))))...)))))))).))(.((((((...)))))).)...)))))))). ( -32.10)
>DroYak_CAF1 91699 118 + 1
UCAGAAUUUCGCGCUGACCCC-AAAACAUUAGUAAUGCAAAUCCAUUGCGUUUGCGAAGUCAGAUGAUCGCAUCGAAGAUUUCCAUGCGUCAGUUGUCCCAGCUGUCAAUCGAAGAUCG
...((.(((((((((((....-......)))))(((((((.....))))))).))))))))....((((((((.((.....)).))))(.((((((...)))))).).......)))). ( -30.20)
>consensus
UUAGAUUUUCGCGCUGACCCC_AAAACGUUAGUAAUGCAAAUCGAUUGCGUUUGCGAAGUCAGAUGAUCGCAUCCAAGAUUUCCAUGCGUCAGUUGUCCCAGCUGUCAAUCGAAGAUCG
...((((((((.((.................(((((((((.....))))).))))((((((.((((....))))...))))))...))(.((((((...)))))).)...)))))))). (-29.80 = -30.20 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:41 2006