Locus 8978

Sequence ID	3R_DroMel_CAF1
Location	24,086,616 – 24,086,719
Length	103
Max. P	0.600639

overview

Window 9

Location	24,086,616 – 24,086,719
Length	103
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	77.34
Mean single sequence MFE	-22.26
Consensus MFE	-13.45
Energy contribution	-15.66
Covariance contribution	2.21
Combinations/Pair	1.10
Mean z-score	-1.66
Structure conservation index	0.60
SVM decision value	0.14
SVM RNA-class probability	0.600639
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24086616 103 + 27905053
CUUUGCUUUUCCCUGCUCUGCCGCGCUUUUGCUCGCGAUUUUUU----CGCCUUUUCCCCCGCUGCCAUAAAUUGCAAAAGUGGCUUUGCCUCGCCCAGGGAAAACU
......(((((((((.........((((((((..((((.....)----)))..........(....).......))))))))(((........)))))))))))).. ( -27.20)
>DroSec_CAF1 274216 102 + 1
CUUUGCUUUUCCCUGCUCUGCCGCGCUUUUGCUCGCGAUUUUUU----CGCCUUUUCC-CCGCUGCCAUAAAUUGCAAAAGUGGCUUUGCCUCGCCCAGGGAAAACU
......(((((((((.........((((((((..((((.....)----))).......-..(....).......))))))))(((........)))))))))))).. ( -27.20)
>DroSim_CAF1 274246 103 + 1
CUUUGCUUUUCCCUGCUCUGCCGCGCUUUUGCUCGCGAUUUUUU----CGCCUUUUCCCCCGCUGCCAUAAAUUGCAAAAGUGGCUUUGCCUCGCCCAGGGAAAACU
......(((((((((.........((((((((..((((.....)----)))..........(....).......))))))))(((........)))))))))))).. ( -27.20)
>DroEre_CAF1 288453 103 + 1
CUUUGCUUUUCUCAGCUCUGCCGCGCAUUUGCUCGCGAUUUUUU----CUCCUUUUCCCCCGCUGCCAUAAAUUGCGAAAGUGGCUUUGCCUCGCCCAGGGAAAACU
......(((((((.((...(((((((....))(((((((((...----.....................)))))))))..)))))...))........))))))).. ( -22.76)
>DroWil_CAF1 330685 90 + 1
CUUUGCUUUGCUUU----UGCUACUCUUUU--UUCAAACUGCUCUCCCUUCUCACCAUUCCAUUGCCAUAAAUUGUGAAAGUGGCUUCUACC-----------AUCA
....(((..(((((----..(.........--..........................................)..)))))))).......-----------.... (  -6.94)
>consensus
CUUUGCUUUUCCCUGCUCUGCCGCGCUUUUGCUCGCGAUUUUUU____CGCCUUUUCCCCCGCUGCCAUAAAUUGCAAAAGUGGCUUUGCCUCGCCCAGGGAAAACU
......(((((((((......((((........))))........................((.(((((...........)))))...))......))))))))).. (-13.45 = -15.66 +   2.21)

alignment

secondary structure

dotplot

Window 0

Location	24,086,616 – 24,086,719
Length	103
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	77.34
Mean single sequence MFE	-26.78
Consensus MFE	-14.71
Energy contribution	-17.20
Covariance contribution	2.49
Combinations/Pair	1.21
Mean z-score	-1.70
Structure conservation index	0.55
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24086616 103 - 27905053
AGUUUUCCCUGGGCGAGGCAAAGCCACUUUUGCAAUUUAUGGCAGCGGGGGAAAAGGCG----AAAAAAUCGCGAGCAAAAGCGCGGCAGAGCAGGGAAAAGCAAAG
..(((((((((..(...((...((..(((((((..(((.((....))...)))...(((----(.....))))..))))))).)).)).)..)))))))))...... ( -30.50)
>DroSec_CAF1 274216 102 - 1
AGUUUUCCCUGGGCGAGGCAAAGCCACUUUUGCAAUUUAUGGCAGCGG-GGAAAAGGCG----AAAAAAUCGCGAGCAAAAGCGCGGCAGAGCAGGGAAAAGCAAAG
..(((((((((..(...((...((..(((((((..((..((....)).-.))....(((----(.....))))..))))))).)).)).)..)))))))))...... ( -31.00)
>DroSim_CAF1 274246 103 - 1
AGUUUUCCCUGGGCGAGGCAAAGCCACUUUUGCAAUUUAUGGCAGCGGGGGAAAAGGCG----AAAAAAUCGCGAGCAAAAGCGCGGCAGAGCAGGGAAAAGCAAAG
..(((((((((..(...((...((..(((((((..(((.((....))...)))...(((----(.....))))..))))))).)).)).)..)))))))))...... ( -30.50)
>DroEre_CAF1 288453 103 - 1
AGUUUUCCCUGGGCGAGGCAAAGCCACUUUCGCAAUUUAUGGCAGCGGGGGAAAAGGAG----AAAAAAUCGCGAGCAAAUGCGCGGCAGAGCUGAGAAAAGCAAAG
..((((((((.(((........))).((..(((...........)))..))...))).)----))))..(((((........)))))....(((......))).... ( -28.40)
>DroWil_CAF1 330685 90 - 1
UGAU-----------GGUAGAAGCCACUUUCACAAUUUAUGGCAAUGGAAUGGUGAGAAGGGAGAGCAGUUUGAA--AAAAGAGUAGCA----AAAGCAAAGCAAAG
....-----------........((..((((((..(((((....)))))...))))))..))...((..(((...--.))).....((.----...))...)).... ( -13.50)
>consensus
AGUUUUCCCUGGGCGAGGCAAAGCCACUUUUGCAAUUUAUGGCAGCGGGGGAAAAGGCG____AAAAAAUCGCGAGCAAAAGCGCGGCAGAGCAGGGAAAAGCAAAG
..((((((((((((........))).(((((((...........)))))))..................(((((........))))).....)))))))))...... (-14.71 = -17.20 +   2.49)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:24:02 2006