Locus 5872

Sequence ID X_DroMel_CAF1
Location 15,134,992 – 15,135,085
Length 93
Max. P 0.724753
window9533

overview

Window 3

Location 15,134,992 – 15,135,085
Length 93
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 74.87
Mean single sequence MFE -14.41
Consensus MFE -1.84
Energy contribution -2.52
Covariance contribution 0.68
Combinations/Pair 1.10
Mean z-score -1.58
Structure conservation index 0.13
SVM decision value 0.41
SVM RNA-class probability 0.724753
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15134992 93 + 22224390
AAUCCAUAGGUACAUUGGGUAGCUU--------UUAAAUUAUAGCCAAAGCAUAAGUUCUCUAAAAA----AAAAACCAUAUAAUUUGG-AUGUCUGUUUCAUUUU
.(((((.........))))).((.(--------((((((((((((....))...((....)).....----........))))))))))-).))............ ( -10.30)
>DroSec_CAF1 46440 84 + 1
AAUCCAUAGG---------CAGCUU--------CUAAAUUAUAGCCAAAGCAUUAGUUAUCUAAAAA-----AAAACCAUAUAAUUUGGAAUGUCUGUUUCAUUUU
.....(((((---------((..((--------((((((((((((....)).((((....))))...-----.......)))))))))))))))))))........ ( -18.10)
>DroSim_CAF1 37135 84 + 1
AAUCCAUAGG---------CAGCUU--------CUAAAUUAUAGCCAUAGCAUUAGUUCUCUAAAAA-----AAAACCAUAUAAUUUGGAAUGUCUGUUUCAUUUU
.....(((((---------((..((--------((((((((((((....)).((((....))))...-----.......)))))))))))))))))))........ ( -18.10)
>DroEre_CAF1 53307 93 + 1
AAUCCAUUGG---------CACUUUGGGGAGAUCUAAAUUAUAACCAUAACAUUA----UUUAAAAAAAGAGAAAAACAUAUAAUUUGGGAUGUCUGAUUCAUUUU
...(((....---------.....)))(((.((((((((((((............----....................)))))))).)))).))).......... (  -9.85)
>DroYak_CAF1 54021 78 + 1
AAUCCAUAGG---------CACUUG--------CUA---UAUAACUAUAGCUAUAUUUCUUUAAA--------AAAUCAUAUAAUUUGUGAUGUCUGUUUGAUUCU
((((.(((((---------(....(--------(((---((....))))))..............--------..((((((.....))))))))))))..)))).. ( -15.70)
>consensus
AAUCCAUAGG_________CAGCUU________CUAAAUUAUAGCCAUAGCAUUAGUUCUCUAAAAA_____AAAACCAUAUAAUUUGGAAUGUCUGUUUCAUUUU
.................................((((((((((....................................))))))))))................. ( -1.84 =  -2.52 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:29 2006