Locus 1261

Sequence ID X_DroMel_CAF1
Location 3,751,950 – 3,752,057
Length 107
Max. P 0.542595
window2027

overview

Window 7

Location 3,751,950 – 3,752,057
Length 107
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 88.63
Mean single sequence MFE -36.25
Consensus MFE -25.50
Energy contribution -26.25
Covariance contribution 0.75
Combinations/Pair 1.23
Mean z-score -1.58
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.542595
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3751950 107 - 22224390
CCACCAGCAACAUCCAGGCGGAGGUGUCCACCAGCAGCACCAAGUGAUGGUUGCUCAUCAGGCACACGCCCAUACACAGGUUAGCAACCAGCAGCCCGUGCUGCAGG
...((...........((.(((....))).)).(((((((...((..((((((((.(((.(((....)))........))).))))))))...))..))))))).)) ( -37.40)
>DroSec_CAF1 5734 104 - 1
CCACCAGCAACAUCCAGGAGGAGGUGCCCACCAGCAGCACCAAGU---GGUUGCCCAUCAGGCACACCCCCACACGCAGGCUAGCCACCAGCAGCCCGUGCUGCAGG
...((.(((...(((....)))..)))......(((((((...((---((.((((.....)))).....)))).....((((.((.....)))))).))))))).)) ( -37.30)
>DroSim_CAF1 5747 104 - 1
CCACCAGCAACAUCCAGGAGGAGGUGCCCACCAGCAGCACCAAGU---GGUUGCCCAUCAGGCACACCCCCACACGCAGGCUAGCCACCAGCAGCCCGUGCUGCAGG
...((.(((...(((....)))..)))......(((((((...((---((.((((.....)))).....)))).....((((.((.....)))))).))))))).)) ( -37.30)
>DroYak_CAF1 5815 101 - 1
CCACCAGCAAAAUCCAGG---GGGCGCCCACCAGCAGCACCAAGU---GGUUGGCCAUCAGGCACUCACCCACGCACAGGUGAACCACCAGCAGCCCGUGUUGCAGG
...((...........((---((....)).)).(((((((...(.---((((((((....)))..(((((........)))))........))))))))))))).)) ( -33.00)
>consensus
CCACCAGCAACAUCCAGGAGGAGGUGCCCACCAGCAGCACCAAGU___GGUUGCCCAUCAGGCACACCCCCACACACAGGCUAGCCACCAGCAGCCCGUGCUGCAGG
...((.(((...(((....)))..)))......(((((((...((...(((((((.....))))...)))...))...((((.((.....)))))).))))))).)) (-25.50 = -26.25 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:16 2006