Locus 2242

Sequence ID 2R_DroMel_CAF1
Location 8,281,126 – 8,281,234
Length 108
Max. P 0.594705
window3691

overview

Window 1

Location 8,281,126 – 8,281,234
Length 108
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 75.46
Mean single sequence MFE -27.78
Consensus MFE -10.96
Energy contribution -12.05
Covariance contribution 1.09
Combinations/Pair 1.30
Mean z-score -2.08
Structure conservation index 0.39
SVM decision value 0.12
SVM RNA-class probability 0.594705
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8281126 108 - 20766785
GCACGACAAGUUUGAAACAUCAACAUGGGUUCGAUUG-----GGGUUUGUAUU----GAAAUCCGAGCUGUGUAAUUAUCGGAAAAGAUAUUAUUCGAAUUGGAUCGUGUAAACAUA
((((..((.(((.((....))))).))(((((((((.-----((((..(((((----....(((((............)))))...))))).)))).)))))))))))))....... ( -26.50)
>DroPse_CAF1 8625 116 - 1
ACACGCCAAGUUUGGUACUUCAACAUUGAUUUGUGCCCCGCAG-GACAGGAUCGCAAGAUACCAGGAUUCCGGGGGUAGCGCGCAGAAUAUUACCCGAAUUGGAUCAUAUAAACAUA
.....((((.((.((((..(((....)))((((((((((.(.(-((..(((((....))).)).....)))).)))....)))))))....)))).)).)))).............. ( -29.50)
>DroSec_CAF1 3947 107 - 1
GAACGACAAGUUCGAAACAUCAACAUGGUUUCGAUUG-----G-GUUUGUAUU----GAAAUCGGAGCUGUGUAAUUAUCGGAAAAGAUAUUAUUCGAAUUGGAUCGUGUAAACAUA
..((((..((((((((......((((((((((((((.-----(-((....)))----..))))))))))))))...((((......))))...))))))))...))))......... ( -29.30)
>DroSim_CAF1 3083 107 - 1
GCACGACAAGUUCGAAACAUCAACAUGGUUUCGAUUG-----U-GUUUGUAUU----GAAAUCGGAGCUGUGUAAUUAUCGGAAAAGAUAUUAUUCGAAUUGGAUCGUGUAAACAUA
((((((..((((((((......((((((((((((((.-----.-((....)).----..))))))))))))))...((((......))))...))))))))...))))))....... ( -33.50)
>DroEre_CAF1 3134 90 - 1
GCACGACAAGU-UGAAACAUCAACAUUAGUUCGAUUG--------------------------AGAGCUGUGUAAUUAUCGGAAAAGAUAUUAUUCGAAUUGGAUCAUGUAAACAUA
((((.....((-(((....)))))...(((((.....--------------------------.))))))))).....(((((.((....)).)))))................... ( -16.00)
>DroYak_CAF1 3065 113 - 1
ACACGACAAGUUUGAAGCAUCAACAUUUGUUCGAUUCGAUUGG-CGUUGGAUUG---GAAAUCCGAGCUGUGUAAUUAUCGGAAAAGAUAUUAUUCGAAUUGGAUCGUGUAAACAUA
(((((((((((((((....)))).)))))((((((((((..((-(.((((((..---...)))))))))..(((((.(((......))))))))))))))))))))))))....... ( -31.90)
>consensus
GCACGACAAGUUUGAAACAUCAACAUGGGUUCGAUUG_____G_GUUUGUAUU____GAAAUCAGAGCUGUGUAAUUAUCGGAAAAGAUAUUAUUCGAAUUGGAUCGUGUAAACAUA
((((((..((((((((......((((.(((((................................)))))))))...((((......))))...))))))))...))))))....... (-10.96 = -12.05 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:42 2006