Locus 4709

Sequence ID	X_DroMel_CAF1
Location	12,249,433 – 12,249,576
Length	143
Max. P	0.965007

overview

Window 7

Location	12,249,433 – 12,249,553
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.81
Mean single sequence MFE	-27.84
Consensus MFE	-24.18
Energy contribution	-24.94
Covariance contribution	0.76
Combinations/Pair	1.03
Mean z-score	-1.61
Structure conservation index	0.87
SVM decision value	1.17
SVM RNA-class probability	0.925984
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12249433 120 + 22224390
CAAUUGAAAUUUGCCAACUGGCAAGGGCUUCCACAUCAAAAUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAA
...((((...(((((....)))))((....))...))))..((((((((((((.((........)).))))))))).((((((((((.((....))...))))).)))))...))).... ( -29.10)
>DroSec_CAF1 17479 119 + 1
CAAUUGAAAU-UGCCGACUGGCAAGGGCUUCCACAUCAAAAUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAA
...((((..(-((((....)))))((....))...))))..((((((((((((.((........)).))))))))).((((((((((.((....))...))))).)))))...))).... ( -28.50)
>DroSim_CAF1 7263 119 + 1
CAAUUGAAAU-UGCCGACUGGCAAGGGCUUCCACAUCAAAAUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCCCUCUAAAGAA
.........(-((((....)))))(((.................(((((((((.((........)).))))))))).....((((((.((....))...))))))...)))......... ( -26.30)
>DroEre_CAF1 12704 119 + 1
CAAUUGAAAU-GCCCGACUGGCAGGGGCUUCCACAUCAAAAUCACAACAUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGUAUUCAACCUCAACAA
.........(-(((.....))))((((...................(((((((.((........)).)))))))...((((((((((.((....))...))))).))))).))))..... ( -27.90)
>DroYak_CAF1 5872 119 + 1
CAAUUGAAAU-UGCCGACUGGCAAGGGCUUCCACAUCAAAAUCACAACAUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAA
...((((..(-((((....)))))((....................(((((((.((........)).)))))))...((((((((((.((....))...))))).))))).))))))... ( -27.40)
>consensus
CAAUUGAAAU_UGCCGACUGGCAAGGGCUUCCACAUCAAAAUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAA
...((((....((((....)))).((....))...)))).....(((((((((.((........)).))))))))).((((((((((.((....))...))))).))))).......... (-24.18 = -24.94 +   0.76)

alignment

secondary structure

dotplot

Window 8

Location	12,249,473 – 12,249,576
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	95.53
Mean single sequence MFE	-22.28
Consensus MFE	-20.52
Energy contribution	-20.32
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-1.55
Structure conservation index	0.92
SVM decision value	1.57
SVM RNA-class probability	0.965007
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12249473 103 + 22224390
AUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAAAGGAAAAUUAAUUUCGUCAACCG
.((((((((((((.((........)).))))))))((((((((((((.((....))...))))).))))).(((......)))..........)))))).... ( -22.00)
>DroSec_CAF1 17518 103 + 1
AUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAAAGGAAAAUUAAUUUCGUCAACCG
.((((((((((((.((........)).))))))))((((((((((((.((....))...))))).))))).(((......)))..........)))))).... ( -22.00)
>DroSim_CAF1 7302 103 + 1
AUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCCCUCUAAAGAAAGGAAAAUUAAUUUCGUCAACCG
.....((((((((.((........)).))))))))((((((((((((.((....))...)))))).((((.((....))..)))).......))))))..... ( -22.00)
>DroEre_CAF1 12743 103 + 1
AUCACAACAUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGUAUUCAACCUCAACAAAGGGAAAUUAAUUUCGUCAACCG
......(((((((.((........)).))))))).((((((.(((((.((....))...))))).......(((......))).........))))))..... ( -22.00)
>DroYak_CAF1 5911 103 + 1
AUCACAACAUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAAAGGAAAAUUAAUUUCGUCAACCG
......(((((((.((........)).))))))).((((((((((((.((....))...))))))......(((......))).........))))))..... ( -23.40)
>consensus
AUGACUACGUAGUGCAUUCAAAUCUGGACUGUGUAGAUGAAUUUCAUGGCAUUCGCACAAUGAGAAUUCAACCUCAACAAAGGAAAAUUAAUUUCGUCAACCG
......(((((((.((........)).))))))).((((((((((((.((....))...))))))......(((......))).........))))))..... (-20.52 = -20.32 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:33 2006