Locus 5579

Sequence ID 3L_DroMel_CAF1
Location 15,306,810 – 15,306,912
Length 102
Max. P 0.814231
window8824

overview

Window 4

Location 15,306,810 – 15,306,912
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 80.48
Mean single sequence MFE -44.82
Consensus MFE -29.83
Energy contribution -33.97
Covariance contribution 4.14
Combinations/Pair 1.17
Mean z-score -1.90
Structure conservation index 0.67
SVM decision value 0.66
SVM RNA-class probability 0.814231
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15306810 102 + 23771897
CCUGCAGUUGCAUUGGAGACGAUGAGCUGCUCUGCAGCUGUGGCGGAGGUGGCGGCAUUGGGGUCAAUCUCCUCGAGAGUGGCACCCAGAGCAGCGUGACCA
...((((((.(((((....)))))))))))(((((.......)))))(((.(((((.(((((((((.((((...)))).)))).))))).))..))).))). ( -48.00)
>DroVir_CAF1 39185 78 + 1
CCUGCAAUUGCAAUGCGGACGAUGAGCUGCUCUGCGGCUGCGGCGGG------------------------CUGGAGAGCGGCACACAGAGCAGCGCCACGA
.(((((.......))))).((.((.(((((((((.((((((..(...------------------------.....).))))).).)))))))))..)))). ( -34.80)
>DroSim_CAF1 39204 102 + 1
CCUGCAGUUGCAUUGGAGACGACGAGCUGCUCUGCAGCUGCGGCGGAGGUGGCGGCAUUGGGGUCAAUCUCCUCGAGAGUGGCACCCAGAGCAGCGUGACCA
(((((((((((((((....))).(((...)))))))))))))).)..(((.(((((.(((((((((.((((...)))).)))).))))).))..))).))). ( -47.90)
>DroEre_CAF1 38613 102 + 1
CCUGCAGCUGCAUUGGGGACGACGAUCUGCUCUGCAGCUGCGGCGGAGGUGGCGGCAUUGGGGCCAAUCUCCUCGAGAGUGGCACCCAGAGCAGCGUGACCA
((((((((((((..(.(((......))).)..))))))))))).)..(((.(((((.(((((((((.((((...)))).)))).))))).))..))).))). ( -53.60)
>DroYak_CAF1 36205 102 + 1
CCUGCAGCUGCAUUGGCGACGACGAUCUGCUCUGCAGCUGCGGCGGAGGUGGCGGCAUUGGGGUCAAUCUCCUCGAGAGUGGCACCCAGAGCAGCGUGACCA
((((((((((((..(((((......)).))).))))))))))).)..(((.(((((.(((((((((.((((...)))).)))).))))).))..))).))). ( -49.10)
>DroAna_CAF1 36994 99 + 1
CCUGUACCUGCAACGGCGAGGAGGACCUACUGUGCAGCUGCGGAGGCGGUGGAGG---AGGGGCCAAUCUCCUGGAGAGUGCCACCCAGAGCAGCGUCACCA
.(((((.(((((.(((..(((....))).)))))))).))))).((((.((...(---.(((((...((((...))))..))).)))....)).)))).... ( -35.50)
>consensus
CCUGCAGCUGCAUUGGAGACGACGAGCUGCUCUGCAGCUGCGGCGGAGGUGGCGGCAUUGGGGUCAAUCUCCUCGAGAGUGGCACCCAGAGCAGCGUGACCA
.(((((((((((..(.((........)).)..)))))))))))....(((.(((((.(((((((((.((((...)))).)))).))))).))..))).))). (-29.83 = -33.97 +   4.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:53 2006