Locus 4701

Sequence ID 3R_DroMel_CAF1
Location 12,351,340 – 12,351,433
Length 93
Max. P 0.500000
window7726

overview

Window 6

Location 12,351,340 – 12,351,433
Length 93
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 89.76
Mean single sequence MFE -30.97
Consensus MFE -23.27
Energy contribution -24.07
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.75
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12351340 93 + 27905053
GACUUAAGACUCUCCGAUGCGGCUCAGCAUCGUCAUUGGUCGGGAAGUGCA------ACUGCAUCUGC------AUCUGCAUCUCUAUUGCUGCUUUGCAGGCAU
.((((..((((...((((((......)))))).....))))...))))((.------.(((((...((------(...(((.......))))))..))))))).. ( -28.80)
>DroSec_CAF1 20164 87 + 1
GACUUAAGACUCUGCGAUGCGGCUCAGCAUCGUCAUUGGUCGGGAAGUGCA------ACUGCAUC------------UGCAUCUCUAUUGCUGCUUUGCAGGCAU
.((((..((((..(((((((......)))))))....))))...))))((.------.(((((..------------.(((.(......).)))..))))))).. ( -29.40)
>DroSim_CAF1 19274 93 + 1
GACUUAAGACUCUGCGAUGCGGCUCAGCAUCGUCAUUGGUCGGGAAGUGCA------ACUGCAUCUGC------AUCUGCAUCUCUAUUGCUGCUUUGCAGGCAU
.((((..((((..(((((((......)))))))....))))...))))((.------.(((((...((------(...(((.......))))))..))))))).. ( -30.90)
>DroEre_CAF1 20039 99 + 1
GACUUAAGACUCUGCGAUGCGGCUCAGCAUCGUCAUUGGUGGGGAACUGCA------ACUGCAUCUGCAUCGGCGUCUGCAUCUCUAUUGCUGCUUUGCAGGCAU
.............(((((((......)))))))..((((((.(((..(((.------...)))))).)))))).(((((((...............))))))).. ( -30.96)
>DroYak_CAF1 16275 105 + 1
GACUUAAGACUCUGCGAUGCGGCUCAGCAUCGUCAUUGGUCGGGAACUGCAACUGCAACUGCAUCUGCAUCUGCAUCUGCAUCUCUAUUGCUGCUUUGCAGGCAU
.......((((..(((((((......)))))))....))))((((..((((..((((..(((....)))..))))..))))))))...((((((...))).))). ( -34.80)
>consensus
GACUUAAGACUCUGCGAUGCGGCUCAGCAUCGUCAUUGGUCGGGAAGUGCA______ACUGCAUCUGC______AUCUGCAUCUCUAUUGCUGCUUUGCAGGCAU
.......((((..(((((((......)))))))....)))).(((..((((.........((....)).........))))..)))..((((((...))).))). (-23.27 = -24.07 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:55 2006