Locus 494

Sequence ID	2L_DroMel_CAF1
Location	1,482,690 – 1,482,799
Length	109
Max. P	0.821545

overview

Window 8

Location	1,482,690 – 1,482,799
Length	109
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.52
Mean single sequence MFE	-25.75
Consensus MFE	-16.18
Energy contribution	-18.24
Covariance contribution	2.06
Combinations/Pair	1.05
Mean z-score	-1.89
Structure conservation index	0.63
SVM decision value	0.68
SVM RNA-class probability	0.821545
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1482690 109 + 22407834
AAUGUCAAAAUGGGAAAUUAAUGGGCCAAGGAAGUGGUCG---GAUUGGGUCGAAAU-------GGGAAUAACUUGGCCCUCGAAACUUUUUUCAUUUUGAUUCAUUAAUGAAAAGUUC-
...(((((((((..(((.....((((((((.......(((---(......))))...-------........))))))))........)))..))))))))).................- ( -29.29)
>DroPse_CAF1 135056 91 + 1
AAUGUCAAAAUGGGAAAUUAAUGGUCCAAGGAAAUAGUG-------UUGGAGG----------------------AGCGCCGGAAACUUUUUUCAUUUUGAUUCAUUAAUGAAAAGUUCC
...(((((((((..(((.......(((((.(......).-------)))))((----------------------....))(....).)))..))))))))).................. ( -18.90)
>DroSim_CAF1 102820 109 + 1
AAUGUCAAAAUGGGAAAUUAAUGGGCCAAGGAAGUGGUCG---GAUUCGGUCGAAAU-------GGGAAUAACUUGGCCCUCGAAACUUUUUUCAUUUGGAUUCAUUAAUGAAAAGUUC-
...(((.(((((..(((.....((((((((....((..((---....))..))....-------........))))))))........)))..))))).))).................- ( -26.61)
>DroYak_CAF1 103541 109 + 1
AAUGUCAAAAUGGGAAAUUAAUGGGCCAAGGAAGUGGUCG---GAUUCGGACGAAAU-------GCGAAUAACUUGGCCCUGCAAACUUUUUUCAUUUUGAUUCAUUAAUGAAAAGUUC-
...(((((((((..(((.....((((((((....((.(((---.((((....).)))-------.))).)).))))))))........)))..))))))))).................- ( -32.02)
>DroAna_CAF1 101518 119 + 1
AAUGUCGAAAUGGGAAAUUAAUGGGCCAAGGAAAUGGUAGCAGUAUUCAAACGAAAUGGUAAAUGGAAAUAACUUGGCCCGCGAAACUUUUUUCAUUUUGAUUCAUUAAUGAAAAGUUC-
...(((((((((..(((((..(((((((((.......((.((...(((....))).)).)).((....))..)))))))))..))...)))..))))))))).................- ( -28.80)
>DroPer_CAF1 133178 91 + 1
AAUGUCAAAAUGGGAAAUUAAUGGUCCAAGGAAAUAGUG-------UUGGAGG----------------------AGCGCCGGAAACUUUUUUCAUUUUGAUUCAUUAAUGAAAAGUUCC
...(((((((((..(((.......(((((.(......).-------)))))((----------------------....))(....).)))..))))))))).................. ( -18.90)
>consensus
AAUGUCAAAAUGGGAAAUUAAUGGGCCAAGGAAAUGGUCG___GAUUCGGACGAAAU_______GGGAAUAACUUGGCCCUCGAAACUUUUUUCAUUUUGAUUCAUUAAUGAAAAGUUC_
...(((((((((..(((.....((((((((..........................................))))))))........)))..))))))))).................. (-16.18 = -18.24 +   2.06)

alignment

secondary structure

dotplot

Window 9

Location	1,482,690 – 1,482,799
Length	109
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.52
Mean single sequence MFE	-17.68
Consensus MFE	-11.67
Energy contribution	-13.45
Covariance contribution	1.78
Combinations/Pair	1.04
Mean z-score	-1.44
Structure conservation index	0.66
SVM decision value	0.27
SVM RNA-class probability	0.660166
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1482690 109 - 22407834
-GAACUUUUCAUUAAUGAAUCAAAAUGAAAAAAGUUUCGAGGGCCAAGUUAUUCCC-------AUUUCGACCCAAUC---CGACCACUUCCUUGGCCCAUUAAUUUCCCAUUUUGACAUU
-......((((....))))((((((((....(((((....((((((((........-------...(((........---))).......))))))))...)))))..)))))))).... ( -21.77)
>DroPse_CAF1 135056 91 - 1
GGAACUUUUCAUUAAUGAAUCAAAAUGAAAAAAGUUUCCGGCGCU----------------------CCUCCAA-------CACUAUUUCCUUGGACCAUUAAUUUCCCAUUUUGACAUU
(((((((((((((..........)))))..)))))))).((....----------------------..(((((-------..........)))))))...................... ( -10.10)
>DroSim_CAF1 102820 109 - 1
-GAACUUUUCAUUAAUGAAUCCAAAUGAAAAAAGUUUCGAGGGCCAAGUUAUUCCC-------AUUUCGACCGAAUC---CGACCACUUCCUUGGCCCAUUAAUUUCCCAUUUUGACAUU
-((((((((((((..((....)))))))..)))))))...((((((((........-------..(((....)))..---..........))))))))...................... ( -20.45)
>DroYak_CAF1 103541 109 - 1
-GAACUUUUCAUUAAUGAAUCAAAAUGAAAAAAGUUUGCAGGGCCAAGUUAUUCGC-------AUUUCGUCCGAAUC---CGACCACUUCCUUGGCCCAUUAAUUUCCCAUUUUGACAUU
-......((((....))))((((((((....(((((....((((((((..(.(((.-------..(((....)))..---)))....)..))))))))...)))))..)))))))).... ( -24.40)
>DroAna_CAF1 101518 119 - 1
-GAACUUUUCAUUAAUGAAUCAAAAUGAAAAAAGUUUCGCGGGCCAAGUUAUUUCCAUUUACCAUUUCGUUUGAAUACUGCUACCAUUUCCUUGGCCCAUUAAUUUCCCAUUUCGACAUU
-((((((((((((..........)))))..)))))))...((((((((..(..............(((....)))............)..))))))))...................... ( -19.27)
>DroPer_CAF1 133178 91 - 1
GGAACUUUUCAUUAAUGAAUCAAAAUGAAAAAAGUUUCCGGCGCU----------------------CCUCCAA-------CACUAUUUCCUUGGACCAUUAAUUUCCCAUUUUGACAUU
(((((((((((((..........)))))..)))))))).((....----------------------..(((((-------..........)))))))...................... ( -10.10)
>consensus
_GAACUUUUCAUUAAUGAAUCAAAAUGAAAAAAGUUUCCAGGGCCAAGUUAUUCCC_______AUUUCGUCCGAAUC___CGACCACUUCCUUGGCCCAUUAAUUUCCCAUUUUGACAUU
.......((((....))))((((((((....(((((....((((((((..........................................))))))))...)))))..)))))))).... (-11.67 = -13.45 +   1.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:29 2006