Locus 8807

Sequence ID 3R_DroMel_CAF1
Location 23,542,048 – 23,542,166
Length 118
Max. P 0.616282
window14142

overview

Window 2

Location 23,542,048 – 23,542,166
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.63
Mean single sequence MFE -26.18
Consensus MFE -15.22
Energy contribution -15.82
Covariance contribution 0.60
Combinations/Pair 1.25
Mean z-score -1.82
Structure conservation index 0.58
SVM decision value 0.17
SVM RNA-class probability 0.616282
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23542048 118 + 27905053
AGGCACUCCAUUUAUGGCAGACUUUAUUAUAAUAACACACAUUUGUGUGUUUAUCUCUUCAGCACACAAGCAUUUUGAGUGCAGUUUGUUUAUCGAUGUGGCCAAUGAUCCACUGAAU--
.(((....((((.((((((((((..........(((((((....)))))))..........((((.((((...)))).)))))))))).)))).))))..)))...............-- ( -28.70)
>DroSec_CAF1 8898 119 + 1
A-GCACUACAUUUAUGACAAACUUUAUUAUAAUUGCACACAUUUGUGUGUUUAUCUCUUCAGCACACAAGCAUUUGGAGUGCAGUUUGUUUAUCGAUGUGGCCAAUGAUCCACUGAAUAU
.-...(((((((.((((((((((.((((.(((.(((......(((((((((.(.....).)))))))))))).))).)))).)))))).)))).)))))))................... ( -28.40)
>DroSim_CAF1 10598 118 + 1
AGGCACUCCAUUUAUGACAAACUUUAUUAUAAUAACACACACUUGUGUGUUUAUCUCUUCAGCACACAAGCAUUUGGAGUGCAGUUUGUUUAUCGAUGUGGCCAAUGAUCCACUGAAU--
..((((((((...(((.......((((....))))......((((((((((.(.....).))))))))))))).))))))))...............((((........)))).....-- ( -29.90)
>DroEre_CAF1 8974 106 + 1
AG-CA--------AUGGCAAACUUAAUUAUAAUA---CACAAGUGUGUGCUUAGCUCUUCAGUGCACAAACAUUUUGCGUGCAGCUUGUUUAUUGAUGUGGCCAAUGAUCAACUGAAU--
((-(.--------..((((.((((..........---...))))...))))..))).((((((((((...........))))....((.((((((.......)))))).)))))))).-- ( -20.92)
>DroYak_CAF1 11320 95 + 1
-------------AUGGCAAACUUCAUUAUAAUAAUGCACAUGUGUGUGCUUAUCUCUUAAGUGCACAAACACUUUGAGUGCAGUUU----------GUGGCCAAUGAUAAACUGAAU--
-------------.((((.........(((((...(((((...((((..((((.....))))..))))..(.....).)))))..))----------)))))))..............-- ( -23.00)
>consensus
AGGCACU_CAUUUAUGGCAAACUUUAUUAUAAUAACACACAUUUGUGUGUUUAUCUCUUCAGCACACAAGCAUUUUGAGUGCAGUUUGUUUAUCGAUGUGGCCAAUGAUCCACUGAAU__
...............((((((((....................((((((((.........)))))))).((((.....)))))))))))).......((((........))))....... (-15.22 = -15.82 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:11 2006