Locus 3789

Sequence ID	X_DroMel_CAF1
Location	10,029,100 – 10,029,203
Length	103
Max. P	0.547641

overview

Window 4

Location	10,029,100 – 10,029,203
Length	103
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	84.84
Mean single sequence MFE	-24.50
Consensus MFE	-16.99
Energy contribution	-16.77
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-1.85
Structure conservation index	0.69
SVM decision value	-0.03
SVM RNA-class probability	0.516462
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10029100 103 + 22224390
AUGCAAAAAGUUGUAAGCGAAAAGCCAGAGGUGCAAAGGAGGACCAUUGCAAAAAUCAACAGGCCAUAAUGGGUUAAUUAAGGCAGGG-----UGA----UGGCAAACUGAA--------
.(((((....))))).((.....))(((.(((.(......).))).((((....((((.(..(((.((((......)))).)))..).-----)))----).)))).)))..-------- ( -25.20)
>DroEre_CAF1 36459 103 + 1
AUGCAAAAAGUUGUGCGCGAAAGACCAGAGGUGCAAAGGAGGACCAUUGCAAAAAUCAACAGGCCAUAAUGGGUUAAUUAAGGCAGGG-----UGA----UGGCAAACUGAA--------
..(((........))).(....)..(((.(((.(......).))).((((....((((.(..(((.((((......)))).)))..).-----)))----).)))).)))..-------- ( -25.20)
>DroYak_CAF1 33747 120 + 1
AUGCAAAAUGUUGUGAGCGAAGGGCGAGAGGUGCAAAGGAGGAGCAUUGCAAAAAUCAACAGGCCAUAAUGGGUUAAUUAAGGCAGUGAUGGCUGAUGGGUGGCAAACUGAAAACUGAGA
.((((...(.((((...(....))))).)..))))...........((((....(((....((((((.....(((......)))....))))))....))).)))).............. ( -23.10)
>consensus
AUGCAAAAAGUUGUGAGCGAAAGGCCAGAGGUGCAAAGGAGGACCAUUGCAAAAAUCAACAGGCCAUAAUGGGUUAAUUAAGGCAGGG_____UGA____UGGCAAACUGAA________
.(((.....((((..........((.....))((((.(......).))))......))))..(((.((((......)))).)))..................)))............... (-16.99 = -16.77 +  -0.22)

alignment

secondary structure

dotplot

Window 5

Location	10,029,100 – 10,029,203
Length	103
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	84.84
Mean single sequence MFE	-17.23
Consensus MFE	-14.82
Energy contribution	-14.93
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-1.38
Structure conservation index	0.86
SVM decision value	0.03
SVM RNA-class probability	0.547641
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10029100 103 - 22224390
--------UUCAGUUUGCCA----UCA-----CCCUGCCUUAAUUAACCCAUUAUGGCCUGUUGAUUUUUGCAAUGGUCCUCCUUUGCACCUCUGGCUUUUCGCUUACAACUUUUUGCAU
--------........((((----(((-----.(..(((.((((......)))).)))..).)))....(((((.((....)).)))))....)))).....((............)).. ( -19.10)
>DroEre_CAF1 36459 103 - 1
--------UUCAGUUUGCCA----UCA-----CCCUGCCUUAAUUAACCCAUUAUGGCCUGUUGAUUUUUGCAAUGGUCCUCCUUUGCACCUCUGGUCUUUCGCGCACAACUUUUUGCAU
--------........((((----(((-----.(..(((.((((......)))).)))..).)))....(((((.((....)).)))))....)))).......(((........))).. ( -18.20)
>DroYak_CAF1 33747 120 - 1
UCUCAGUUUUCAGUUUGCCACCCAUCAGCCAUCACUGCCUUAAUUAACCCAUUAUGGCCUGUUGAUUUUUGCAAUGCUCCUCCUUUGCACCUCUCGCCCUUCGCUCACAACAUUUUGCAU
...............(((..................(((.((((......)))).))).(((((.....(((((..........)))))......((.....))...)))))....))). ( -14.40)
>consensus
________UUCAGUUUGCCA____UCA_____CCCUGCCUUAAUUAACCCAUUAUGGCCUGUUGAUUUUUGCAAUGGUCCUCCUUUGCACCUCUGGCCUUUCGCUCACAACUUUUUGCAU
...............(((..................(((.((((......)))).)))..((((.....(((((.((....)).)))))......((.....))...)))).....))). (-14.82 = -14.93 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:33 2006