Locus 4491

Sequence ID	X_DroMel_CAF1
Location	11,879,790 – 11,879,938
Length	148
Max. P	0.958056

overview

Window 1

Location	11,879,790 – 11,879,898
Length	108
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	89.91
Mean single sequence MFE	-35.48
Consensus MFE	-30.77
Energy contribution	-31.77
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.37
Structure conservation index	0.87
SVM decision value	0.06
SVM RNA-class probability	0.563133
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11879790 108 + 22224390
ACUUGCCGCACGUCGGGGACCCUGCGUAUUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGUUCCUCCU---------CCGU---CUCG
...........(.((((((....((((((..(((.....)))(((((........))))))))))).....(((((((.....)))))))......))).---------))).---)... ( -35.70)
>DroSec_CAF1 11808 108 + 1
ACUUGCCGCACGUCCGGGACCCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCUU---------CCGU---CUCC
.......(.(((...((((((..(((((...(((.....)))(((((........))))).))))).....(((((((.....))))))).))))))...---------.)))---)... ( -37.50)
>DroSim_CAF1 14145 108 + 1
ACUUGCCGCACGUCCGGGACCCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCCU---------CCGU---CUCC
.......(.(((...((((((..(((((...(((.....)))(((((........))))).))))).....(((((((.....))))))).))))))...---------.)))---)... ( -37.50)
>DroYak_CAF1 15402 120 + 1
ACUUGCCGCACGUCCGGGAGCCUGCGUUCUGGGAGUUCAUCCGGCAUUGACAAACAUGCCACACGCUCAAUGACUGCUGUCCAAGCAGUCCAGUCCACCUUCAUCUCCACCGUCUCCUCC
.......(.(((....((((...((((....(((.....)))(((((........)))))..)))).....(((((((.....)))))))..............))))..))))...... ( -31.20)
>consensus
ACUUGCCGCACGUCCGGGACCCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCCU_________CCGU___CUCC
................(((((..(((((...(((.....)))(((((........))))).))))).....(((((((.....))))))).)))))........................ (-30.77 = -31.77 +   1.00)

alignment

secondary structure

dotplot

Window 2

Location	11,879,830 – 11,879,938
Length	108
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	88.01
Mean single sequence MFE	-38.01
Consensus MFE	-30.33
Energy contribution	-30.89
Covariance contribution	0.56
Combinations/Pair	1.06
Mean z-score	-2.46
Structure conservation index	0.80
SVM decision value	1.48
SVM RNA-class probability	0.958056
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11879830 108 + 22224390
CCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGUUCCUCCU---------CCGU---CUCGUCGCGGAAUCCAAGUGGAAUGGACUAAACUGACCCAGAGC
..(((((........)))))....((((.......(((.....)))((((((((((.(.(---------((((---......)))))......).))))))))))...........)))) ( -35.00)
>DroSec_CAF1 11848 108 + 1
CCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCUU---------CCGU---CUCCUCGCGGAAUCCAAGUGGAAUGGGCUAAACUGACCCAGAGC
..(((((........)))))....((((...(((((((.....))))))).(((((..((---------((((---......))))))(((....)))..)))))...........)))) ( -38.20)
>DroSim_CAF1 14185 108 + 1
CCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCCU---------CCGU---CUCCUCGCGGAAUCCAGGUGGAAUGGGCUAAACUGACCCAGAGC
..(((((........)))))....((((...(((((((.....)))))))...(((.(((---------((((---......))))).....)).))).(((((......).)))))))) ( -38.50)
>DroYak_CAF1 15442 120 + 1
CCGGCAUUGACAAACAUGCCACACGCUCAAUGACUGCUGUCCAAGCAGUCCAGUCCACCUUCAUCUCCACCGUCUCCUCCUCGCAUGAACCAGGUGGAAUGGGUUAAAGUGACCCAGAGC
..(((((........)))))....((((...(((((((.....)))))))...((((((((((((.................).))))...))))))).((((((.....)))))))))) ( -40.33)
>consensus
CCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCCU_________CCGU___CUCCUCGCGGAAUCCAAGUGGAAUGGGCUAAACUGACCCAGAGC
..(((((........)))))....((((...(((((((.....)))))))...(((.(((.........((((.........)))).....))).))).(((((......).)))))))) (-30.33 = -30.89 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:23 2006