Locus 3562

Sequence ID	2R_DroMel_CAF1
Location	11,879,576 – 11,879,672
Length	96
Max. P	0.765064

overview

Window 2

Location	11,879,576 – 11,879,672
Length	96
Sequences	4
Columns	114
Reading direction	reverse
Mean pairwise identity	88.60
Mean single sequence MFE	-33.42
Consensus MFE	-27.24
Energy contribution	-27.68
Covariance contribution	0.44
Combinations/Pair	1.06
Mean z-score	-1.71
Structure conservation index	0.81
SVM decision value	0.51
SVM RNA-class probability	0.765064
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11879576 96 - 20766785
GUAUGGGGGUUCUGUUGUAAUGGAGCGCGCAUAUUUCGGCUCGAAUCUGUGUGGGUGAGCUUAUGAGUCAGUGAGCAGCUGAACGCAUAUGU------------------GUGU
(((((.(.(((((((....))))))).).))))).((((((...((((....))))..((((((......))))))))))))(((((....)------------------)))) ( -29.60)
>DroSec_CAF1 20049 106 - 1
GUAUGGGGGUUCUGUUGUAAUGGAGCGCGCAUAUUUCGGCUCGAAUCUGUGUGGGUGAGCUUAUGAGUCAGUGAGCAGCUGAACGCAUAUGUGUGAGUG--------UGUGUGU
(((((.(.(((((((....))))))).).))))).((((((...((((....))))..((((((......))))))))))))((((((((......)))--------))))).. ( -34.50)
>DroSim_CAF1 20197 114 - 1
GUAUGGGGGUUCUGUUGUAAUGGAGCGCGCAUAUUUCGGCUCGAAUCUGUGUGGGUGAGCUUAUGAGUCAGUGAGCAGCUGAACGCAUAUGUGCUACUGUGCUUGUUUGUGUGU
(((((.(.(((((((....))))))).).)))))....((.(((((..(((..(...(((.((((..(((((.....)))))...))))...))).)..)))..))))).)).. ( -35.40)
>DroYak_CAF1 20134 104 - 1
GUAUGGGGGUUCUCUUGUAAUGGAGCGCGCAUAUUUCGGCUCGAAUCUGUGUGGGUGAGCUUAUGAGUCAGUGAGCAGCUGAACGCAUGUGUGCA--UC--------UAUGUAU
.((..(((....)))..))(((((((((((((..(((((((...((((....))))..((((((......)))))))))))))...)))))))).--))--------))).... ( -34.20)
>consensus
GUAUGGGGGUUCUGUUGUAAUGGAGCGCGCAUAUUUCGGCUCGAAUCUGUGUGGGUGAGCUUAUGAGUCAGUGAGCAGCUGAACGCAUAUGUGC___UG________UGUGUGU
........(((((((....)))))))(((((((((((((((...((((....))))..((((((......)))))))))))))...)))))))).................... (-27.24 = -27.68 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:35 2006