Locus 3402

Sequence ID X_DroMel_CAF1
Location 9,107,866 – 9,107,986
Length 120
Max. P 0.839355
window5566

overview

Window 6

Location 9,107,866 – 9,107,986
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.00
Mean single sequence MFE -46.78
Consensus MFE -36.23
Energy contribution -36.63
Covariance contribution 0.40
Combinations/Pair 1.27
Mean z-score -1.92
Structure conservation index 0.77
SVM decision value 0.74
SVM RNA-class probability 0.839355
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9107866 120 - 22224390
UCUGUCCCCAAAUGCCAACACAACAAUGCGGCGGUCCAACGGGAAUUGGCUGCCGUGGCGGCCGCGGCAGCCGUGGCUCGCCGGAAGAAAAGCAGCUGGCAAUCGCAGGCACAGUCUCAA
.((((((.....(((((.(........(((((((.((((......)))))))))))(((((((((((...))))))).))))............).)))))......)).))))...... ( -49.30)
>DroSec_CAF1 19512 120 - 1
UCUGUGCACAAAUGCCGACACAACAAUGCGGCGAUCCAACGGGAAUUGGCCGCCGUGGCGGCCGCGGCAGCCGUGGUUCGCCGGAAGAAAAGCACAUGGCAAUCGCAGGCAAAGUCUCAA
.((.(((.....(((((.((......))))))).(((....)))...((((((....))))))((((..(((((((((...(....)...))).))))))..))))..))).))...... ( -45.90)
>DroSim_CAF1 15812 120 - 1
UCUGUGCACAAAUGCCGACACAACAAUGCGGCGAUCCAACGGGAAUUGGCCGCCGUGGCGGCCGCGGCAGCCGUGGUUCGCCGGAAGAAAAGCACAUGGCAACCGCAGGCAAAGUCUCAA
.((.(((.....(((((.((......))))))).(((....)))...((((((....))))))((((..(((((((((...(....)...))).))))))..))))..))).))...... ( -48.40)
>DroEre_CAF1 12773 120 - 1
ACUGUGCACAAAUGCCGACACAACCAAGUGCAGAUCCAACGGGAAUUGGCUGCCGUGGCGGCCGUUGCAACUGUGCCUCGGCGCAAGAAAAGCACCUGGCAAUCGCAGGCCCAGGCGCAA
.((.(((......(((((((((......(((((.(((....)))...((((((....)))))).)))))..))))..))))))))))....((.((((((........).))))).)).. ( -42.60)
>DroYak_CAF1 13119 111 - 1
ACUGCGCAAAAAUGCCGCCACAACCAUGUGCCCAUCCAACGGGAAUUGGCUGCCGUGGCAGC---------GGUGGCUCGGCGCAAGAAGAGCACCUGGCAAUCGCAGGCGCAGACGCAA
.((((((.....((((((..((.(((....(((.......)))...))).))..))))))((---------(((.(((.((.((.......)).)).))).)))))..))))))...... ( -47.70)
>consensus
UCUGUGCACAAAUGCCGACACAACAAUGCGGCGAUCCAACGGGAAUUGGCUGCCGUGGCGGCCGCGGCAGCCGUGGCUCGCCGGAAGAAAAGCACCUGGCAAUCGCAGGCACAGUCUCAA
.((((((.....(((((...........((((((.(((.(((....(((((((....)))))))......)))))).)))))).............))))).......))))))...... (-36.23 = -36.63 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:28 2006