Locus 1970

Sequence ID 3R_DroMel_CAF1
Location 5,559,973 – 5,560,093
Length 120
Max. P 0.974308
window3231

overview

Window 1

Location 5,559,973 – 5,560,093
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.45
Mean single sequence MFE -26.30
Consensus MFE -21.82
Energy contribution -22.02
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.83
SVM decision value 1.73
SVM RNA-class probability 0.974308
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5559973 120 + 27905053
GGAAUGUAUCAAAAAAGCUGCAUUGGCUUCAAUAGAAGGAAGCAAUCGUUUCGUCAAAUUUUAUUUGACUAAACCUAUUCUCUGGUGCAUUUGGGUUUUUUAUUUCUCUUUAACGAAAAA
.((((((((((...(((((.....))))).(((((...(((((....)))))(((((((...))))))).....)))))...))))))))))..........((((........)))).. ( -25.40)
>DroSec_CAF1 4647 116 + 1
G-AAUGUAUCAAAAAAGCUGCAUUGGCUUCAAUAGAAGGAAGCAAUCGUUUCGUCAAAUUUCAUUUGACUAAACCUAUUCUCUGGUGCAUUUG--UUUUU-UUUUCUCUUUUAAGAAAAA
(-(((((((((...(((((.....))))).(((((...(((((....)))))(((((((...))))))).....)))))...)))))))))).--....(-((((((......))))))) ( -27.00)
>DroSim_CAF1 2903 117 + 1
G-AAUGUAUCAAAAAAGCAGCAUUGGCUUCAAUAGAAGGAAGCAAUCGUUUCGUCAAAUUUCAUUUGACUAAACCUAUUCUCUGGUGCAUUUG--UUUUUUUUUUCUCUUUUAAGAAAAA
(-(((((((((..............(((((........)))))....((((.(((((((...))))))).))))........)))))))))).--.....(((((((......))))))) ( -26.20)
>DroEre_CAF1 2786 113 + 1
G-AAUGUAUCAAAAAAGCUGCAUUGGCUUCAAUAGAAGGAAGCAAUCGUUUCGUCAAAUUUCAUUUGACUAAACCUAUUCUCUGGUGCAUUUG--UUUUU-G---UUCUUUUUAGAAAAA
(-(((((((((...(((((.....))))).(((((...(((((....)))))(((((((...))))))).....)))))...)))))))))).--.....-.---((((....))))... ( -25.50)
>DroYak_CAF1 3007 113 + 1
G-AAUGUAUCAAAAAAGCUGCAUUGGCUUCAAUAGAAGGAAGCAAUCGUUUCGUCAAAUUUCAUUUGACUAAACCUAUUCUCUGGUGCAUUUG--UUUCU-G---UUCUUUGAAGAAAAA
.-((((((.(......).))))))..((((((.((((((((((((..((...(((((((...)))))))...(((........)))))..)))--)))))-.---))))))))))..... ( -27.40)
>consensus
G_AAUGUAUCAAAAAAGCUGCAUUGGCUUCAAUAGAAGGAAGCAAUCGUUUCGUCAAAUUUCAUUUGACUAAACCUAUUCUCUGGUGCAUUUG__UUUUU_GUUUCUCUUUUAAGAAAAA
..(((((((((...(((((.....))))).(((((...(((((....)))))(((((((...))))))).....)))))...)))))))))............................. (-21.82 = -22.02 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:07 2006