Locus 340

Sequence ID 3L_DroMel_CAF1
Location 967,549 – 967,644
Length 95
Max. P 0.729243
window506

overview

Window 6

Location 967,549 – 967,644
Length 95
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 65.62
Mean single sequence MFE -17.17
Consensus MFE -8.07
Energy contribution -9.23
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.47
SVM decision value 0.42
SVM RNA-class probability 0.729243
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 967549 95 - 23771897
-----CAUCCAAAUACGACGAGCAUUGUA---CUAA--AUGAAAGCUCAGCUCGUUUAACUCACCUUCAUGCUGGGGAAACCAAUGCCGACCACAAAGUUGGCCA
-----..(((......(((((((..((..---((..--.....))..))))))))).......((........))))).......((((((......)))))).. ( -21.90)
>DroPse_CAF1 13707 86 - 1
UCA--UAU--ACAUAUGUCAUGGA---UAAGCCCAA--ACCCUAUCC----------CACUCACCUUCAUGCUGGGGAAACCAAUGCCAACCACNNNNNNNNNNN
...--...--...........(((---((.......--....)))))----------.............((..((....))...)).................. (  -9.60)
>DroGri_CAF1 11020 88 - 1
AGUAAAUAUCAAUUCAGAUUUGAA---UA---AUUAGAGGGUA-AGU----------GACACACCUUCAUGCUGGGGAAACCAAUGCCGACCACAAAAUUGGCCA
((((.......((((......)))---).---....((((((.-...----------.....)))))).)))).((....))...(((((........))))).. ( -19.00)
>DroSec_CAF1 9919 82 - 1
-----CACCCAAAUAGGACAUGAA---UA---CUUA--ACGAAAGAA----------CGCUCACCUUCAUGCUGGGGAAACCAAUGCCGACCACAAAGUUGGCCA
-----..(((.....((.((((((---..---....--.(....)..----------........)))))))).)))........((((((......)))))).. ( -18.33)
>DroSim_CAF1 10000 82 - 1
-----CACCCAAAUACGACAUGAA---AA---CUCA--ACGAAAGAA----------AGCUCACCUUCAUGCUGGGAAAACCAAUGCCGACCACAAAGUUGGCCA
-----..((((.....(.((((((---..---....--.(....)..----------........))))))))))).........((((((......)))))).. ( -16.33)
>DroYak_CAF1 10643 77 - 1
-----CACCCAAAUACGACGAGCAUU-------AUG--CC----GGC----------CACUCACCUUCAUGCUGGGGAAACCAAUGCCGACCACAAAGUUGGCCA
-----..............(.((...-------..)--))----(((----------((((.........((..((....))...)).........)).))))). ( -17.87)
>consensus
_____CACCCAAAUACGACAUGAA___UA___CUUA__ACGAAAGAA__________CACUCACCUUCAUGCUGGGGAAACCAAUGCCGACCACAAAGUUGGCCA
..........................................................................((....))...((((((......)))))).. ( -8.07 =  -9.23 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:36 2006