Locus 7203

Sequence ID	2L_DroMel_CAF1
Location	20,245,171 – 20,245,326
Length	155
Max. P	0.771473

overview

Window 5

Location	20,245,171 – 20,245,286
Length	115
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	90.00
Mean single sequence MFE	-30.27
Consensus MFE	-22.47
Energy contribution	-24.47
Covariance contribution	2.00
Combinations/Pair	1.00
Mean z-score	-2.30
Structure conservation index	0.74
SVM decision value	0.07
SVM RNA-class probability	0.569230
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20245171 115 + 22407834
-----UCUUCUUAUUAAACUGUUAUCGCAAUUACAUUCGCUUAGGAUGACGAGCUGGAAGACAAAUGUCCGAAGUUCUUGCCUUGGCAAGGUCAUAAACCAAUUAUGACAAAUAAAGGGA
-----(((..(((((....(((((..((((...(((((.....)))))..(((((....(((....)))...)))))))))..)))))..(((((((.....))))))).)))))..))) ( -29.90)
>DroSec_CAF1 3710 120 + 1
CUAAAGAUACUUAUUUAGCAGUUACCACAAUUGCAUUCUUUUAGCCUGACGAGCUGGAAGACAAAUGUCCGAAGUUCUUGCCUUGGCAAGGUCAUAAACCAAUUAUGACAAAUAAAGGGA
...........(((((.((((((.....))))))..((((((((((....).))))))))).)))))(((......(((((....)))))(((((((.....))))))).......))). ( -30.50)
>DroSim_CAF1 3896 120 + 1
CUAAAGAUUCUUAUUAAGCAGUUACCACAAUUGCAUUCUUUUAGCCUGACGAGCUGGAAGACAAAUGUCCGAAGUUCUUGCCUUGGCAAGGUCAUAAACCAAUUAUGACAAAUAAAGGGA
.................((((((.....))))))..((((((((((....).)))))))))......(((......(((((....)))))(((((((.....))))))).......))). ( -30.40)
>consensus
CUAAAGAUUCUUAUUAAGCAGUUACCACAAUUGCAUUCUUUUAGCCUGACGAGCUGGAAGACAAAUGUCCGAAGUUCUUGCCUUGGCAAGGUCAUAAACCAAUUAUGACAAAUAAAGGGA
.................((((((.....))))))..(((((((((.......)))))))))......(((......(((((....)))))(((((((.....))))))).......))). (-22.47 = -24.47 +   2.00)

alignment

secondary structure

dotplot

Window 6

Location	20,245,206 – 20,245,326
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-39.87
Consensus MFE	-37.70
Energy contribution	-37.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.90
Structure conservation index	0.95
SVM decision value	0.53
SVM RNA-class probability	0.771473
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20245206 120 - 22407834
AGCCGAAUCACAUGAGGAUGUGGGGCUGCGGUUGAGGGACUCCCUUUAUUUGUCAUAAUUGGUUUAUGACCUUGCCAAGGCAAGAACUUCGGACAUUUGUCUUCCAGCUCGUCAUCCUAA
..............((((((..((((((.(((((((((...))))).....(((((((.....)))))))(((((....)))))))))..((((....))))..))))))..)))))).. ( -38.90)
>DroSec_CAF1 3750 120 - 1
AGCCGAAUCACAUGAGGAUGUGGGGCUGCGGUUGAGGGACUCCCUUUAUUUGUCAUAAUUGGUUUAUGACCUUGCCAAGGCAAGAACUUCGGACAUUUGUCUUCCAGCUCGUCAGGCUAA
(((((..((((((....))))))..).(((((((..(((((((........(((((((.....)))))))(((((....)))))......))).....))))..)))).)))..)))).. ( -40.70)
>DroSim_CAF1 3936 120 - 1
AGCCCAAUCACAUGAGGAUGUGGGGCUGCGGUUGAGGGACUCCCUUUAUUUGUCAUAAUUGGUUUAUGACCUUGCCAAGGCAAGAACUUCGGACAUUUGUCUUCCAGCUCGUCAGGCUAA
(((((...(((((....))))))))))(((((((..(((((((........(((((((.....)))))))(((((....)))))......))).....))))..)))).)))........ ( -40.00)
>consensus
AGCCGAAUCACAUGAGGAUGUGGGGCUGCGGUUGAGGGACUCCCUUUAUUUGUCAUAAUUGGUUUAUGACCUUGCCAAGGCAAGAACUUCGGACAUUUGUCUUCCAGCUCGUCAGGCUAA
((((...((((((....))))))))))(((((((..(((((((........(((((((.....)))))))(((((....)))))......))).....))))..)))).)))........ (-37.70 = -37.70 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:03 2006