Locus 8203

Sequence ID	3L_DroMel_CAF1
Location	21,567,202 – 21,567,362
Length	160
Max. P	0.966216

overview

Window 0

Location	21,567,202 – 21,567,322
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-43.83
Consensus MFE	-43.03
Energy contribution	-43.37
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.39
Structure conservation index	0.98
SVM decision value	-0.03
SVM RNA-class probability	0.519199
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21567202 120 + 23771897
AAAGUCACCGUUGGCAAAGUCUGCAGUUUGUUGGCUGAUGAGCCUUCGAGAUUGAUAGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGU
...((((....))))...((..((((((...(((((((.(.(((.(((....)))....))).))))).))).))))))...)).....(((((((.(((((....))))).))))))). ( -41.30)
>DroSec_CAF1 14836 120 + 1
AAGGUCACCGUUGGCAAAGUCUGCAGUUUGUUGGCUGAUGAGCCUUCCAGAUUGAUGGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGU
...((((....))))...((..((((((...(((((((.(.(((..(((......))).))).))))).))).))))))...)).....(((((((.(((((....))))).))))))). ( -45.10)
>DroSim_CAF1 15018 120 + 1
AAGGUCACCGUUGGCAAAGUCUGCAGUUUGUUGGCUGAUGAGCCUUCCAGAUUGAUGGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGU
...((((....))))...((..((((((...(((((((.(.(((..(((......))).))).))))).))).))))))...)).....(((((((.(((((....))))).))))))). ( -45.10)
>consensus
AAGGUCACCGUUGGCAAAGUCUGCAGUUUGUUGGCUGAUGAGCCUUCCAGAUUGAUGGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGU
...((((....))))...((..((((((...(((((((.(.(((..(((......))).))).))))).))).))))))...)).....(((((((.(((((....))))).))))))). (-43.03 = -43.37 +   0.33)

alignment

secondary structure

dotplot

Window 1

Location	21,567,242 – 21,567,362
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-52.40
Consensus MFE	-50.67
Energy contribution	-51.00
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.59
Structure conservation index	0.97
SVM decision value	1.59
SVM RNA-class probability	0.966216
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21567242 120 + 23771897
AGCCUUCGAGAUUGAUAGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGUUUGGGAUCCCCUUCGGGAAGGUGGAGCGGCGGGCAGAAAU
.((((.((.((((((.........))))))))..((((((((((.....(((((((.(((((....))))).))))))).......((((....))))..))))))))))))))...... ( -51.60)
>DroSec_CAF1 14876 120 + 1
AGCCUUCCAGAUUGAUGGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGUUUUGGAUCCCCUUCGGGAAGGUGGAGCGGCGGGCAGAAAU
.(((..(((......))).))).....((((...((((((((((.....(((((((.(((((....))))).))))))).......((((....))))..))))))))))))))...... ( -52.80)
>DroSim_CAF1 15058 120 + 1
AGCCUUCCAGAUUGAUGGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGUUUUGGAUCCCCUUCGGGAAGGUGGAGCGGCGGGCAGAAAU
.(((..(((......))).))).....((((...((((((((((.....(((((((.(((((....))))).))))))).......((((....))))..))))))))))))))...... ( -52.80)
>consensus
AGCCUUCCAGAUUGAUGGUGGCACUCAGUCCGUAGCUGCUUCGCAUUACCUGGUCGAUGGUGAAAUCGCCGCUGGCCAGUUUUGGAUCCCCUUCGGGAAGGUGGAGCGGCGGGCAGAAAU
.(((..(((......))).))).....((((...((((((((((.....(((((((.(((((....))))).))))))).......((((....))))..))))))))))))))...... (-50.67 = -51.00 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:19 2006