Locus 4732

Sequence ID	X_DroMel_CAF1
Location	12,303,114 – 12,303,249
Length	135
Max. P	0.985947

overview

Window 0

Location	12,303,114 – 12,303,212
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	97.75
Mean single sequence MFE	-20.32
Consensus MFE	-19.26
Energy contribution	-19.70
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-1.75
Structure conservation index	0.95
SVM decision value	2.02
SVM RNA-class probability	0.985947
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12303114 98 - 22224390
AAAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGAGUUAUUAUAAAUCUAUUAUACAUA
..............(((((((((...(((.((((.....)))).))))))))))))((((.((((.(((((..(....)..))))))))).))))... ( -22.10)
>DroSec_CAF1 5390 98 - 1
AAAUACUUAUAACAUUUCGCCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGAGUUAUUAUAAAUCUAUUAUACAUA
................((..((((..(((.((((.....)))).)))..)))).))((((.((((.(((((..(....)..))))))))).))))... ( -19.70)
>DroSim_CAF1 5920 98 - 1
AAAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGAGUUAUUAUAAAUCUAUUAUACAUA
..............(((((((((...(((.((((.....)))).))))))))))))((((.((((.(((((..(....)..))))))))).))))... ( -22.10)
>DroEre_CAF1 5302 97 - 1
-AAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGCAUUAUAGUAUUUACGAGUUAUUAUAAAUCUAUUAUACAUA
-((((((.((((..(((((((((...(((.((((.....)))).))))))))))))...))))))))))............................. ( -19.10)
>DroYak_CAF1 4803 97 - 1
-AAUACUUAUAACAUUUGGGCAAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGAGUUAUUAUAAAUCUAUUAUACAUA
-.............(((.(((((...(((.((((.....)))).)))))))).)))((((.((((.(((((..(....)..))))))))).))))... ( -18.60)
>consensus
AAAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGAGUUAUUAUAAAUCUAUUAUACAUA
..............(((((((((...(((.((((.....)))).))))))))))))((((.((((.(((((..(....)..))))))))).))))... (-19.26 = -19.70 +   0.44)

alignment

secondary structure

dotplot

Window 1

Location	12,303,138 – 12,303,249
Length	111
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	93.84
Mean single sequence MFE	-25.08
Consensus MFE	-20.07
Energy contribution	-20.23
Covariance contribution	0.16
Combinations/Pair	1.13
Mean z-score	-1.46
Structure conservation index	0.80
SVM decision value	0.04
SVM RNA-class probability	0.552036
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12303138 111 - 22224390
AGAUGGAUGAGUGACGUUGGUAGCAGAAAAUAAAUAUAAAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGA
.....((..(((..(((((((((..((((.....(((((....)))))...))))(((((....))))).)))))))))...)))..))(.((((((....)))))).).. ( -25.90)
>DroSec_CAF1 5414 111 - 1
AGAUGGAUGAGUGACGUUGGUAGCAGAAAAUAAAUAUAAAUACUUAUAACAUUUCGCCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGA
..((.((((.....)))).))...............((((((((.((((...(((..((((..(((.((((.....)))).)))..)))).)))..))))))))))))... ( -21.90)
>DroSim_CAF1 5944 111 - 1
AGAUGGAUGAGUGACGUUGGUAGCAGAAAAUAAAUAUAAAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGA
.....((..(((..(((((((((..((((.....(((((....)))))...))))(((((....))))).)))))))))...)))..))(.((((((....)))))).).. ( -25.90)
>DroEre_CAF1 5326 105 - 1
AGAUGGAUGGGUGACGUUAGUGGCAGAAAAUA------AAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGCAUUAUAGUAUUUACGA
..........((.((....)).))......((------((((((.((((..(((((((((...(((.((((.....)))).))))))))))))...))))))))))))... ( -25.40)
>DroYak_CAF1 4827 105 - 1
AGAUGGAUGAGUGACGUUGGCAGCAGAAAAUA------AAUACUUAUAACAUUUGGGCAAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGA
.....((..(((..(((((((((((((..(((------(....))))....))))(((((....))))).)))))))))...)))..))(.((((((....)))))).).. ( -26.30)
>consensus
AGAUGGAUGAGUGACGUUGGUAGCAGAAAAUAAAUAUAAAUACUUAUAACAUUUCGGCGAUUUGUUGCCAUUGCCAAUGGGAAUUUGUCGAGAGUAUUAUAGUAUUUACGA
.....((..(((..(((((((((..((((......................))))(((((....))))).)))))))))...)))..))(.((((((....)))))).).. (-20.07 = -20.23 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:02 2006