Locus 7090

Sequence ID	X_DroMel_CAF1
Location	17,776,212 – 17,776,317
Length	105
Max. P	0.732637

overview

Window 7

Location	17,776,212 – 17,776,317
Length	105
Sequences	4
Columns	114
Reading direction	reverse
Mean pairwise identity	87.21
Mean single sequence MFE	-26.38
Consensus MFE	-19.54
Energy contribution	-19.23
Covariance contribution	-0.31
Combinations/Pair	1.16
Mean z-score	-1.77
Structure conservation index	0.74
SVM decision value	0.43
SVM RNA-class probability	0.732637
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17776212 105 - 22224390
GCCCCAAA------AAGGAACCAC--CGAGAAAGUCAAAUCCGAAUCCG-AAAACCCACCAUCCAUCCUACCGAUUGGCACCACCAAGCGGAUGGAUCUCGAGCGGAUGGGCAC
(((((...------..)...((.(--(((((..........((....))-...........(((((((......((((.....))))..)))))))))))).).))..)))).. ( -28.10)
>DroSec_CAF1 34964 105 - 1
GCCCCAAA------AAGUAACCAC--CGAGAAAGUCAAAUCCGAAUCCG-AAAACCCACCAUCCAUCCUACCGAUUGGCACCACCAAGCGGAUGGAUCUCAAGCGGAUGGGCAC
((((....------..........--((.((........)))).(((((-..........((((((((......((((.....))))..))))))))......))))))))).. ( -26.99)
>DroEre_CAF1 33167 105 - 1
GCCCCAAA------AAGAAACCAC--CGAGAAAGUCAAAUCCGAAUCCU-UAAACCCACCAUCCAUCCUACCGAUUGGCACCACCAAGGGUAUGGAUCUCAAGCGGAUGGGUAC
........------..........--((.((........))))......-........((((((((((((((..((((.....)))).)))).)))).......)))))).... ( -21.41)
>DroYak_CAF1 33677 114 - 1
GUUUCAAGCCACUGAGACAACCACCACGAGAAAGUCAAAUCCGAAUCCGACAAAACCACCAUCCAUCCUACCAAUUGGCACCACCAAGCGGAUGGAUCUCAAGCGGAUGGGUUG
((((((......))))))..(((((.(((((..(((............)))..........(((((((......((((.....))))..)))))))))))..).)).))).... ( -29.00)
>consensus
GCCCCAAA______AAGAAACCAC__CGAGAAAGUCAAAUCCGAAUCCG_AAAACCCACCAUCCAUCCUACCGAUUGGCACCACCAAGCGGAUGGAUCUCAAGCGGAUGGGCAC
((((......................((.((........)))).(((((...........((((((((......((((.....))))..))))))))......))))))))).. (-19.54 = -19.23 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:52 2006