Locus 4543

Sequence ID 3R_DroMel_CAF1
Location 12,044,077 – 12,044,181
Length 104
Max. P 0.715927
window7419

overview

Window 9

Location 12,044,077 – 12,044,181
Length 104
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 81.22
Mean single sequence MFE -43.43
Consensus MFE -29.35
Energy contribution -29.22
Covariance contribution -0.13
Combinations/Pair 1.31
Mean z-score -1.74
Structure conservation index 0.68
SVM decision value 0.39
SVM RNA-class probability 0.715927
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12044077 104 - 27905053
GCUUUCG-----AGCAUGAAAAAUGCAAAACAAACGCCGCCGUCGACGUCGAC--CGCGACUGCGAAGCUGGCGUCGGAGGUGGCGGUGGCGCUGGGCUUUAGGCGU---CUGC
.......-----.((((.....))))........(((((((..((((((((..--(((....)))....))))))))..)))))))..((((((........)))))---)... ( -44.40)
>DroSec_CAF1 15294 104 - 1
GCUUUCG-----AGCAUGAAAAAUGCAAAACAAACGCCGCCGUCGACGUCGAC--CGCGACUGCGAAGCUGGCGUCGGAGGUGGCGGUGGCGCUGGGCUUUAGGCGU---CUGC
.......-----.((((.....))))........(((((((..((((((((..--(((....)))....))))))))..)))))))..((((((........)))))---)... ( -44.40)
>DroSim_CAF1 15294 104 - 1
GCUUUCG-----AGCAUGAAAAAUGCAAAACAAACGCCGCUGUCGACGCCGAC--CGCGACUGCGAAGCUGGCGUCGGAGGUGGCGGUGGCGCUGGGCUUUAGGCGU---CUGC
.......-----.((((.....))))........(((((((..((((((((..--(((....)))....))))))))..)))))))..((((((........)))))---)... ( -44.50)
>DroEre_CAF1 14609 100 - 1
GCUUUCG-----AGCAUGAAAAAUGCAAAACAAACGCCGCCGUCGACGUCGACGGCGCAGCAGCGAAGCUGGCGUCGGAGGUG------GCGCUGGGCUUUAGGCGU---CUGC
(((((((-----(((((.....))))........(((((((((((....)))))))..(((......)))))))))))))))(------(((((........)))))---)... ( -45.50)
>DroYak_CAF1 14877 98 - 1
GCUUUCG-----AGCAUGAAAAAUGCAAAACAAACGCCGCCGUCGACGUCGAC--CGCAGCAGCGCAGCUGGCGUCGGAGGUG------GCGCUGGGCUUUAGGCGU---CUGC
(((((((-----(((((.....))))........((((((.((((....))))--.))(((......)))))))))))))))(------(((((........)))))---)... ( -39.40)
>DroMoj_CAF1 13634 104 - 1
GCCUUCGCUGGCAGCAUGAAAAAUGCAAAACAAACGUCGACUGUGACUGCGAC--GGCGACGUCUGCGUGAGCGUCACCGUCA------GCGUCAGC-AUUC-GCGGUUGCUGC
(((......))).((((.....)))).......((((.(((.(((((...(((--(....)))).((....))))))).))).------))))((((-(...-.....))))). ( -42.40)
>consensus
GCUUUCG_____AGCAUGAAAAAUGCAAAACAAACGCCGCCGUCGACGUCGAC__CGCGACUGCGAAGCUGGCGUCGGAGGUG______GCGCUGGGCUUUAGGCGU___CUGC
.............((((.....)))).......((((((((.(((((((((....(((....)))....))))))))).))).......((.....))....)))))....... (-29.35 = -29.22 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:54 2006