Locus 5142

Sequence ID 3R_DroMel_CAF1
Location 13,529,684 – 13,529,777
Length 93
Max. P 0.500000
window8392

overview

Window 2

Location 13,529,684 – 13,529,777
Length 93
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 92.25
Mean single sequence MFE -23.61
Consensus MFE -22.47
Energy contribution -22.67
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.04
Structure conservation index 0.95
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13529684 93 + 27905053
CAGUCAACCACUUUGAGUGCUCAGACAAAUGUCCCAUUAAUCGCACACUGGGCUCCAACCGAAAACACACGGCCCAGAGUCGCA---------GCCAGAGCU
.(.((((.....)))).)((((.(((....))).........((((.(((((((................))))))).)).)).---------....)))). ( -23.99)
>DroSec_CAF1 4394 93 + 1
CAGUCAACCACUUUGAGAGCUCAGACAAAUGUCCCAUGAAUCGCACACUGGGCUCCAACCGAAAACACACGGCCCAGAGUCGCA---------GCCAGAGCU
...((((.....)))).(((((.(((....))).........((((.(((((((................))))))).)).)).---------....))))) ( -24.39)
>DroSim_CAF1 4870 93 + 1
CAGUCAACCACUUUGAGAGCUCAGACAAAUGUCCCAUGAAUCGCACACUGGGCUCCAACCGAAAACACACGGCCCAGAGUCGCA---------GCCAGAGCU
...((((.....)))).(((((.(((....))).........((((.(((((((................))))))).)).)).---------....))))) ( -24.39)
>DroEre_CAF1 4328 102 + 1
CAGUCAACCACUUUGAGAGCUCAGACAAAUGUCCCAUGAAUCGCACACUGGGCUCCAAACGAGAACACACGGCCCAGAGUCGCAGUCAGCGCCGCCAGAGCU
...((((.....)))).(((((.(((....)))...(((...((((.(((((((................))))))).)).))..))).........))))) ( -25.59)
>DroYak_CAF1 4633 102 + 1
CAGUCAACCACUUUGAGAGCUCAGACAAAUGUCCCAUGAAUCGCACACUCGGCUCCAAACGAAAACACACGGCCCAGAGUCGCAAUCAGCGCCGCCAGAGCU
...((((.....)))).(((((.(((....)))........(((.....((((((....((........)).....))))))......)))......))))) ( -19.70)
>consensus
CAGUCAACCACUUUGAGAGCUCAGACAAAUGUCCCAUGAAUCGCACACUGGGCUCCAACCGAAAACACACGGCCCAGAGUCGCA_________GCCAGAGCU
...((((.....))))..((((.(((....))).........((((.(((((((................))))))).)).))..............)))). (-22.47 = -22.67 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:25 2006