Locus 4840

Sequence ID 3R_DroMel_CAF1
Location 12,660,298 – 12,660,409
Length 111
Max. P 0.594227
window7930

overview

Window 0

Location 12,660,298 – 12,660,409
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.89
Mean single sequence MFE -30.62
Consensus MFE -18.61
Energy contribution -18.87
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.52
Structure conservation index 0.61
SVM decision value 0.12
SVM RNA-class probability 0.594227
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12660298 111 + 27905053
UUUAAUGGACU-----CUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCAA--GUGGUGUUGUGGGACAGCAGAAAAGAAGGCGCACGCACCG--CGAAG
.....((((((-----(.(((.....))).)))).(((((.((((.......)))))))))......))).--(((((((.(((.(....(......)....).)))))))))--).... ( -33.90)
>DroVir_CAF1 32393 104 + 1
UUUAAUGGACU-----CUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCAA--GUGGUGUCAGGGGACAA-----ACA----CGCACACUCCAAUUCACG
.....((((..-----...(((((..((((((....)))))))))))........(((........)))..--(((((((..(....)..-----)))----).)))..))))....... ( -29.20)
>DroPse_CAF1 34679 109 + 1
UUUAAUGGACUCUACUCUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCAA--GUGCUGUCGUGGGACA-----AACACAAGCGCACGCACCG--CGG--
............(((((.(((.....))).)))))....((((.(((........(((........)))..--(((((...(((.....-----..))).)))))..))).))--)).-- ( -31.70)
>DroGri_CAF1 69847 100 + 1
UUUAAUGGACU-----CUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCAA--GUGGUGUCAGGGGACA-------------CGCACACUCCAAUUCACG
.....((((..-----...(((((..((((((....)))))))))))........(((........)))..--((((((((....))))-------------).)))..))))....... ( -29.20)
>DroWil_CAF1 55563 112 + 1
UUUAAUGGACU-----CUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCGAGAGUGGUAUCGGGGGACAA-AGAUGCACAUUUGCACGCCAAU--GAAAG
((((.((((((-----(((((.(((.((((((....))))))((((((....))))))....))).).))))))).(((((.(....)..-.)))))...........))).)--))).. ( -34.30)
>DroMoj_CAF1 41522 87 + 1
UUUAAUGGACU-----CUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCAA--GUGGUGUCGGGAGACAA-----ACA----C-----------------
.....((((((-----(.(((.....))).)))).(((((.((((.......)))))))))......))).--((..((((....)))).-----)).----.----------------- ( -25.40)
>consensus
UUUAAUGGACU_____CUUGCAGUAAGCGUGAGUAUUUACGCGCUGCUUAAAAGCGGUAAAAUAUGGCCAA__GUGGUGUCGGGGGACAA_____ACA____CGCACGCACCA__CCA_G
...................(((((..((((((....)))))))))))......(((..........((((....))))(((....)))..............)))............... (-18.61 = -18.87 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:07 2006