Locus 1668

Sequence ID 3L_DroMel_CAF1
Location 4,848,256 – 4,848,350
Length 94
Max. P 0.613448
window2579

overview

Window 9

Location 4,848,256 – 4,848,350
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 77.04
Mean single sequence MFE -20.97
Consensus MFE -12.59
Energy contribution -12.70
Covariance contribution 0.11
Combinations/Pair 1.09
Mean z-score -1.47
Structure conservation index 0.60
SVM decision value 0.16
SVM RNA-class probability 0.613448
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4848256 94 + 23771897
GU-----GGCAAUCAGCGCUUUGUGAGCCCCAGGCCCGUCUUG-AAAUGGAUUUAAUUAUUUAUUUCGAUUUGAUUACACGCAAUGAUGCGUAGAAUUAA
..-----.....((.((((.(((((.(((...))).((..(((-((((((((......)))))))))))..))......)))))....)))).))..... ( -22.20)
>DroVir_CAF1 97895 89 + 1
------AUGCCUU-UGGGCGCUU---GGCUGCGUCUCGCCUUC-AAAUGAAUUUAAUUAUUUAUUUCGAUUUGAUUAUACGCAAUGAUGCGUAGAAUUAA
------..((...-.((((((..---....)))))).))..((-((((((((......)))))))).)).((((((.((((((....)))))).)))))) ( -21.60)
>DroPse_CAF1 114774 85 + 1
GU--CCGUGCCUUUAGGGCUCUGU------------CGUCUAG-CAAUGGAUUUAAUUAUUUAUUUCGAUUUGAUUAUACGCAAUGAUGCGUAGAAUUAA
((--(((((((.....)))..(((------------......)-))))))))..................((((((.((((((....)))))).)))))) ( -18.60)
>DroGri_CAF1 102893 96 + 1
CACACAAUGCCUUUGGGGCGAUU---GGCUGCGUCUCGCCUUG-AAAUGAAUUUAAUUAUUUAUUUCGAUUUGAUUAUACGCAAUGAUGCGUAGAAUUAA
.......((((.....))))...---(((........)))(((-((((((((......))))))))))).((((((.((((((....)))))).)))))) ( -25.80)
>DroWil_CAF1 77656 84 + 1
GA-----GGCGAUUUG-GUUG--U--------GUCUCGUCUUCCAAAUGAAUUUAAUUAUUUAUUUCGAUUUGAUUAUACGCAAUGAUGCGUAGAAUUAA
((-----((((.....-....--)--------)))))....((.((((((((......)))))))).)).((((((.((((((....)))))).)))))) ( -19.00)
>DroPer_CAF1 120455 85 + 1
GU--CCGUGCCUUUAGGGCUCUGU------------CGUCUAG-CAAUGGAUUUAAUUAUUUAUUUCGAUUUGAUUAUACGCAAUGAUGCGUAGAAUUAA
((--(((((((.....)))..(((------------......)-))))))))..................((((((.((((((....)))))).)))))) ( -18.60)
>consensus
GU_____UGCCUUUAGGGCUCUGU________GUCUCGUCUUG_AAAUGAAUUUAAUUAUUUAUUUCGAUUUGAUUAUACGCAAUGAUGCGUAGAAUUAA
........(((.....)))..........................(((((((......))))))).....((((((.((((((....)))))).)))))) (-12.59 = -12.70 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:18 2006