Locus 4983

Sequence ID 3R_DroMel_CAF1
Location 13,116,803 – 13,116,905
Length 102
Max. P 0.718625
window8149

overview

Window 9

Location 13,116,803 – 13,116,905
Length 102
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 83.06
Mean single sequence MFE -39.97
Consensus MFE -25.52
Energy contribution -26.97
Covariance contribution 1.45
Combinations/Pair 1.13
Mean z-score -2.61
Structure conservation index 0.64
SVM decision value 0.39
SVM RNA-class probability 0.718625
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13116803 102 + 27905053
------------GAAGCUCGGGAUGCAG-----AAGAUGUCGACGAAGUGCAAAGCGCUUCAAACGAUUUUCCGCAAAGUUGACUGCCUUCUGCAGUGGAAGGUGUUUCGAGUGUGCAC
------------(..(((((..((((((-----(((..(((((((((((((...)))))))...((......))....))))))...))))))))..........)..)))))...).. ( -36.60)
>DroVir_CAF1 133827 107 + 1
-----------GGCACCGCAGAAAGCCAGCGGAAAGAUGUCGACGAAGUGCAAAGCGCUUCAAACGAUUUUCCGCAAAGUUGACUGCCUUUUGCAGUGGAAGGUGUUU-GAGUGUGCCU
-----------((((((.((((..(((.(((((((...((((..(((((((...)))))))...)))))))))))....((.(((((.....))))).)).))).)))-).).))))). ( -44.80)
>DroGri_CAF1 133715 107 + 1
-----------GGCACCAUAUAAAGCCAGCGGAAAGAUGUCGACGAAGUGCAAAGCGCUGCAAACGAUUUUCCGCAAAGUUGACUGCCUCUUGCAGUGGAAGGUGCUU-GAGUGUGCCU
-----------(((((.((.(((.(((.(((((((...((((....(((((...))))).....)))))))))))....((.(((((.....))))).)).)))..))-).))))))). ( -38.70)
>DroWil_CAF1 134947 107 + 1
------------GUUUUUCGGGAAGUCAGCGGAAAGAUGUCGACGAAGUGCAAAGCGCUUCAAACGAUUUUCCGCAAAGUUGACUGCCUUCUGCAGUGGAAGGUGUUUUGAGUGUGCUC
------------((..(((((((((((((((((((...((((..(((((((...)))))))...))))))))))).....)))))(((((((.....))))))).)))))))...)).. ( -37.60)
>DroMoj_CAF1 148428 107 + 1
-----------GGCACCACAGAAAGCCAGCGGAAAGAUGUCGACGAAGUGCAAAGCGCUUCAAACGAUUUUCCGCAAAGUUGACUGCUCCGUGCAGUGGAAGGUGUUU-CAGAGUGCCC
-----------(((((....(((((((.(((((((...((((..(((((((...)))))))...)))))))))))....((.(((((.....))))).)).))).)))-)...))))). ( -43.50)
>DroPer_CAF1 203810 118 + 1
UGCUCUGUUGUGGC-UCUCGAGGAGCAGCCCGAAAGAUGUCGACGAAGUGCAAAGCGCUUCAAACGAUUUUCCGCAAAGUUGACUGCCUUCUGCAGUGGAAGGUGUUUUGAGUGUGCAC
.((((..(((.(((-((((...))).)))))))((((((((((((((((((...)))))))...((......))....)))))).(((((((.....))))))))))))))))...... ( -38.60)
>consensus
___________GGCACCUCAGAAAGCCAGCGGAAAGAUGUCGACGAAGUGCAAAGCGCUUCAAACGAUUUUCCGCAAAGUUGACUGCCUUCUGCAGUGGAAGGUGUUU_GAGUGUGCCC
............(((((...........(((((((...((((..(((((((...)))))))...)))))))))))....((.(((((.....))))).)).)))))............. (-25.52 = -26.97 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:34 2006