Locus 4901

Sequence ID X_DroMel_CAF1
Location 12,743,888 – 12,744,000
Length 112
Max. P 0.886711
window7997

overview

Window 7

Location 12,743,888 – 12,744,000
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 70.28
Mean single sequence MFE -31.75
Consensus MFE -14.84
Energy contribution -16.04
Covariance contribution 1.20
Combinations/Pair 1.20
Mean z-score -1.90
Structure conservation index 0.47
SVM decision value 0.94
SVM RNA-class probability 0.886711
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12743888 112 - 22224390
UGCAUUCGUCAGCUAGAGAUGGC-AGACGGCG----GUGG-GGCUGAGCAGCCGAAAAUGCCUAGAUUUGGCUAUUUCAAA--UAAGUCCACAAUAUUAUAUGGGAAUGAACCAUAUUUU
.((...((((.((((....))))-.)))))).----((((-((((....))))((((..(((.......)))..))))...--.....))))......((((((.......))))))... ( -34.00)
>DroSec_CAF1 2735 109 - 1
UGCUUUCGUCAGCUAGAGAUGGCCAAACGGCG----GUGGGGGCUGAGCAGCCCAAAAUGGCUAGGUUCGGCUAUAUUUUG--UGGACUC-----AUUGUAUGUUAAUGAACCAUAUUUU
.(((......))).....((((((.((((((.----((..(((((....)))))...)).)))..))).))))))....((--(((..((-----((((.....)))))).))))).... ( -34.50)
>DroSim_CAF1 2703 112 - 1
UGCGUUCGUCAGCUAGAGAUGGC-AGACGGCG----GUGG-GGCUGAGCAGUCGAAAAUGGCUAGAUUUGGCUAUUUUAUA--UAAGUCCACAAUAUUGAAUGGGAAUGAACCAUAUUUU
..(((.((((.((((....))))-.)))))))----((((-((((....)))).((((((((((....))))))))))...--.....))))........((((.......))))..... ( -33.20)
>DroEre_CAF1 2663 94 - 1
UGCAUUCGUCAGCUAGAGAUGGC-AGACGGCC----GUAG-GACUGAGUAGCCGCAAAUGGCUAGAUUUGGCUAUUUUAAA--UUUGGCUACAAUAAGAAAU------------------
....(((.((((((....(((((-.....)))----)).)-).))))(((((((.(((((((((....)))))))))....--..))))))).....)))..------------------ ( -27.90)
>DroYak_CAF1 2668 100 - 1
UGCGUUCGUCAGCUAGAGAUGGC-AGACUGCAUUAAGUUG-GGCUAGGCAGCCAAAAAUGGCCAGAUUUGGCUAUUUUAUAUAUAUGGCCGGAAUUAAAUCU------------------
((((...(((.((((....))))-.)))))))((((.((.-(((((........(((((((((......))))))))).......))))).)).))))....------------------ ( -29.16)
>consensus
UGCAUUCGUCAGCUAGAGAUGGC_AGACGGCG____GUGG_GGCUGAGCAGCCGAAAAUGGCUAGAUUUGGCUAUUUUAUA__UAAGGCCACAAUAUUAUAUG__AAUGAACCAUAUUUU
.((..((....((((....))))..))..)).....((((.((((....)))).(((((((((......)))))))))..........))))............................ (-14.84 = -16.04 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:41 2006