Locus 7434

Sequence ID	X_DroMel_CAF1
Location	18,548,048 – 18,548,179
Length	131
Max. P	0.846781

overview

Window 5

Location	18,548,048 – 18,548,166
Length	118
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	82.37
Mean single sequence MFE	-33.57
Consensus MFE	-18.90
Energy contribution	-23.54
Covariance contribution	4.64
Combinations/Pair	1.11
Mean z-score	-2.16
Structure conservation index	0.56
SVM decision value	0.33
SVM RNA-class probability	0.690276
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18548048 118 + 22224390
ACAUAAUCAUCUCUGUGGCAAAUAAUGACUAGGGUCAAUUUCCUGGCGGCAUGGGAUAUAUUGCUAAUCCACGCCUCCCAUUUGCCACCCGUCGAAAAGUUUUGACUUUUAUGGCUCC
.(((((........(((((((((...(.((((((......)))))))(((.((((.((......)).)))).)))....)))))))))..((((((....))))))..)))))..... ( -35.50)
>DroSec_CAF1 12888 118 + 1
ACAUAAUCAUCUCUGUGGCAAAUAAUGGCUGGGGUCAAUUUCCCGGCGGCAUGGGAUAUAUUGCUAAUCCACGCCUGCCAUUUGCCACCCGUCGAAAAGUUUUAACUUUUAUGGCUCC
..............(((((((((....(((((((......)))))))((((((((((.........)))).))..)))))))))))))..((((((((((....)))))).))))... ( -40.00)
>DroSim_CAF1 13254 118 + 1
GCAUAAUCAUCUCUGUGGCAAAUAAUGACUGGGGUCAAUUUCCCGGCGGCAUGGGAUAUAUUGCUAAUCCACGCCUGCCAUUUGCCACCCGUCGAAAAGUUUUGACUUUUAUGGCUCC
.(((((........(((((((((.......((((......))))((((((.((((.((......)).)))).))).))))))))))))..((((((....))))))..)))))..... ( -39.50)
>DroEre_CAF1 5196 117 + 1
ACAUAAUCGCAUUUGCGGCGAAUGAUAACUGGGUUCCAUUUCCUGGCAGCAGGGAAAUUAUGGCUAAUCCACGCCUGCCACUUGCCAACCCU-GCAAAGUUUUGACUUUUAUGGCUCC
.(((((..(((...((((((.........((((((((((((((((....))))))....))))..)))))))))).))....)))(((..((-....))..)))....)))))..... ( -28.20)
>DroYak_CAF1 5373 100 + 1
AAAUAAUC------------------AUCUCGGGUCAAUUUCCCGGCGGCAUGGGAAAUAUGGCUAAUCCCCGCCUGCCAUUGGCCACCCUUCGCAAACUUUUGACUUUUAUGGCUCC
........------------------.....(((.......)))((((((..((((...........)))).))).)))...(((((.......(((....))).......))))).. ( -24.64)
>consensus
ACAUAAUCAUCUCUGUGGCAAAUAAUGACUGGGGUCAAUUUCCCGGCGGCAUGGGAUAUAUUGCUAAUCCACGCCUGCCAUUUGCCACCCGUCGAAAAGUUUUGACUUUUAUGGCUCC
..............(((((((((.......((((......))))((((((.((((.((......)).)))).))).))))))))))))((((..((((((....)))))))))).... (-18.90 = -23.54 +   4.64)

alignment

secondary structure

dotplot

Window 6

Location	18,548,088 – 18,548,179
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	90.44
Mean single sequence MFE	-28.81
Consensus MFE	-22.12
Energy contribution	-23.00
Covariance contribution	0.88
Combinations/Pair	1.14
Mean z-score	-1.96
Structure conservation index	0.77
SVM decision value	0.77
SVM RNA-class probability	0.846781
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18548088 91 - 22224390
GGCCAUUAAUAUUGGAGCCAUAAAAGUCAAAACUUUUCGACGGGUGGCAAAUGGGAGGCGUGGAUUAGCAAUAUAUCCCAUGCCGCCAGGA
..(((.......))).(((((....(((..........)))..)))))...(((..(((((((..((......))..))))))).)))... ( -28.50)
>DroSec_CAF1 12928 91 - 1
GGCCAUUAAUAUUGGAGCCAUAAAAGUUAAAACUUUUCGACGGGUGGCAAAUGGCAGGCGUGGAUUAGCAAUAUAUCCCAUGCCGCCGGGA
..(((.......))).(((((....((..((....))..))..)))))...((((.(((((((..((......))..)))))))))))... ( -29.30)
>DroSim_CAF1 13294 91 - 1
GGCCAUUAAUAUUGGAGCCAUAAAAGUCAAAACUUUUCGACGGGUGGCAAAUGGCAGGCGUGGAUUAGCAAUAUAUCCCAUGCCGCCGGGA
..(((.......))).(((((....(((..........)))..)))))...((((.(((((((..((......))..)))))))))))... ( -30.60)
>DroEre_CAF1 5236 90 - 1
GGCCAUUAGUAUCGGAGCCAUAAAAGUCAAAACUUUGC-AGGGUUGGCAAGUGGCAGGCGUGGAUUAGCCAUAAUUUCCCUGCUGCCAGGA
(((....((((..((((((((....(((((..((....-))..)))))..))))).(((........)))......))).))))))).... ( -27.10)
>DroYak_CAF1 5395 91 - 1
GGCCAUUAAUAUUGGAGCCAUAAAAGUCAAAAGUUUGCGAAGGGUGGCCAAUGGCAGGCGGGGAUUAGCCAUAUUUCCCAUGCCGCCGGGA
(((((((....(((((((..............)))).)))..)))))))..((((.((((((((...........)))).))))))))... ( -28.54)
>consensus
GGCCAUUAAUAUUGGAGCCAUAAAAGUCAAAACUUUUCGACGGGUGGCAAAUGGCAGGCGUGGAUUAGCAAUAUAUCCCAUGCCGCCGGGA
..((............(((((....(((..........)))..)))))...((((.(((((((..............))))))))))))). (-22.12 = -23.00 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:53 2006