Locus 3043

Sequence ID 3R_DroMel_CAF1
Location 8,088,831 – 8,088,936
Length 105
Max. P 0.990249
window4918

overview

Window 8

Location 8,088,831 – 8,088,936
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.04
Mean single sequence MFE -26.54
Consensus MFE -24.06
Energy contribution -23.74
Covariance contribution -0.32
Combinations/Pair 1.10
Mean z-score -1.96
Structure conservation index 0.91
SVM decision value 2.20
SVM RNA-class probability 0.990249
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8088831 105 - 27905053
------------CGAAAAAAGACGAAAUAGAGCUGCAGGUGUCAACAAACCAACUAAGGUGGCCUGGUCAAGUGGAGGCCAUUAAAAGAGCGUUGGGCCAGCAGUUAAAA---AACAAUA
------------..................((((((.(((.(((((..(((......)))(((((..........)))))...........)))))))).))))))....---....... ( -26.90)
>DroSec_CAF1 40660 105 - 1
------------CAAAAAAAGACGAAAUAGAGCUGCAGGUGUCAACAAACCAACUAAGGUGGCCUGGUCAAGUGGAGGCCAUUAAAAGAGCGUUGGGCCAGCAGUUAAAA---AACAAUA
------------..................((((((.(((.(((((..(((......)))(((((..........)))))...........)))))))).))))))....---....... ( -26.90)
>DroSim_CAF1 12529 105 - 1
------------CAAAAAAAGACGAAAUAGAGCUGCAGGUGUCAACAAACCAACUAAGGUGGCCUGGUCAAGUGGAGGCCAUUAAAAGAGCGUUGGGCCAGCAGUUAAAA---AACACUA
------------..................((((((.(((.(((((..(((......)))(((((..........)))))...........)))))))).))))))....---....... ( -26.90)
>DroEre_CAF1 15580 117 - 1
GGGUCUAAGACUCGAAA-AAGACGAAAUAGAGCUGCAGGUGUCAAGAAACCAACUAAGGUGGCCUGGUCAAGUGGAGGCCAUCAAAAGAGCGUAGGGCCAGUAGUUAAAA--AAACAAUA
(((((...)))))....-............((((((.(((........)))........((((((((((.......)))).((....)).....))))))))))))....--........ ( -28.10)
>DroYak_CAF1 9001 117 - 1
---UCUAAGACCCGAAAAAAUACGAAAUUGAGCUGCAGGUGUCAAGAAACCAACUAAGGUGGCCUGGUCAAGUGGAGGCCAUUAAAAGAGCGUUGGGCCAGCAGUUAAAAAAAAACUAUA
---...........................((((((.(((........)))........(((((((.((.(((((...)))))....)).)...)))))))))))).............. ( -23.90)
>consensus
____________CGAAAAAAGACGAAAUAGAGCUGCAGGUGUCAACAAACCAACUAAGGUGGCCUGGUCAAGUGGAGGCCAUUAAAAGAGCGUUGGGCCAGCAGUUAAAA___AACAAUA
..............................((((((.(((........)))........((((((((((.......)))).((....)).....)))))))))))).............. (-24.06 = -23.74 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:17 2006