Locus 3546

Sequence ID 3L_DroMel_CAF1
Location 10,391,864 – 10,391,960
Length 96
Max. P 0.664689
window5536

overview

Window 6

Location 10,391,864 – 10,391,960
Length 96
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 82.77
Mean single sequence MFE -19.22
Consensus MFE -11.58
Energy contribution -12.83
Covariance contribution 1.25
Combinations/Pair 1.13
Mean z-score -2.51
Structure conservation index 0.60
SVM decision value 0.28
SVM RNA-class probability 0.664689
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10391864 96 + 23771897
ACCUCCCAAAUCCACCCACCAACUGCCC--CCACAUCACAAAAUCCACUGUCUCUGGCAGAGUGAUUUCUUAUGGCAGUUCAAUUGCGGGGUCAUCAA
.............((((..((((((((.--....(((((........((((.....)))).))))).......)))))).....))..))))...... ( -20.30)
>DroGri_CAF1 282129 76 + 1
-CCUCCCAUG-------------CCAC----CACAUCA-GCAAUUUUGAGAC--UGGCAGAGUGAUUUCUUAUGGCAGUUCAAU-GCGAGGUCAGCAA
-.......((-------------(.((----(...((.-(((...(((((.(--((.(((((......))).)).)))))))))-)))))))..))). ( -16.60)
>DroSec_CAF1 263197 96 + 1
ACCUACCAAAUCCACCCACCAACUCCCC--GCACAUCACACAAUCCUCUGUCUCUAGCAGAGUGAUUUCUUAUGGCAGUUCAAUUGCGGGGUCAUCAA
........................((((--(((........((((((((((.....)))))).)))).....(((....)))..)))))))....... ( -22.50)
>DroSim_CAF1 275245 96 + 1
ACCUCCCAAAUCCACCCACCAACUCCCC--GCACAUCACACAAUCCUCUGUCUCUAGCAGAGUGAUUUCUUAUGGCAGUUCAAUUGCGGGGUCAUCAA
........................((((--(((........((((((((((.....)))))).)))).....(((....)))..)))))))....... ( -22.50)
>DroEre_CAF1 278816 92 + 1
ACCUCCCAAAUCCACCCACCAACUCCCC----ACAUCACACAAUCCUCUCUCU--CGCAGAGUGAUUUCUUAUGGCAGUUCAAUUGCGGGGUCAUCAA
........................((((----.(((.....(((((((((...--.).)))).))))....)))(((((...)))))))))....... ( -16.60)
>DroYak_CAF1 276125 96 + 1
ACCUCCCAAAUCCACCCACCAACUUCCCCCUCCCAUCACACAAUCCUCUAGCU--CGCAGAGUGAUUUCUUAUGGCAGUUCAAUUGCGGGGUCAUCAA
..........................((((...(((.....((((((((.(..--..))))).))))....)))(((((...)))))))))....... ( -16.80)
>consensus
ACCUCCCAAAUCCACCCACCAACUCCCC___CACAUCACACAAUCCUCUGUCU_UAGCAGAGUGAUUUCUUAUGGCAGUUCAAUUGCGGGGUCAUCAA
(((((............................(((.....((((((((((.....)))))).))))....)))(((((...))))))))))...... (-11.58 = -12.83 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:44 2006