Locus 4350

Sequence ID 2L_DroMel_CAF1
Location 12,462,656 – 12,462,770
Length 114
Max. P 0.559148
window6852

overview

Window 2

Location 12,462,656 – 12,462,770
Length 114
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 87.84
Mean single sequence MFE -31.98
Consensus MFE -23.91
Energy contribution -24.48
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -1.47
Structure conservation index 0.75
SVM decision value 0.05
SVM RNA-class probability 0.559148
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12462656 114 + 22407834
AAGGGCGGUCGCGGAAGCUGAGAGUGCUGAGUAAAAAGAGGCAUCUGUUGAAGUUUUUUUUUU----UUGAGGAACUUAAGGGGCUCUAAUUGCCUUAAUGGAGAAAAACGAUUCCGG
.((((((((.((....))..(((((.((((((((((((((((.((....)).)))))))))).----.......))))..)).))))).))))))))..(((((........))))). ( -31.20)
>DroSec_CAF1 35650 118 + 1
AAGGGCGGACGCGGAAGCUGAGAGUGCUGAGUAAAAAGAGGCAUCUGUUGAAGUUUUGUUUUUUCAUUUGAGGAACUUAAGGCGCUCUAAUUGCCUUAAUGGAGAAAAACGAUUCCGG
.(((((((..((....))..((((((((((((.....(((((.((....)).)))))...(((((....)))))))))..))))))))..)))))))..(((((........))))). ( -33.70)
>DroSim_CAF1 36779 118 + 1
AAGGGCGGACGCGGAAGCUGAGAGUGCUGAGUAAAAAGAGGCAUCUGUUGAAGUUUUGUUUUUUCAUUUGAGGAACUUAAGGCGCUCUAAUUGCCUUAAUGGAGAAAAACGAUUCCGG
.(((((((..((....))..((((((((((((.....(((((.((....)).)))))...(((((....)))))))))..))))))))..)))))))..(((((........))))). ( -33.70)
>DroYak_CAF1 35368 111 + 1
AAGGGCGGUCUCGGAAGCUGAGAGCGCUGAGUAAAA-GGGGCGAGUGUUUGAGGUUAU------UUUUUAAGGAACUUAAGGGGCUCUAAUUGCCUUAAUGGAGAAAACCUAUUCCGG
...((((.((((((...)))))).))))(((((...-(((((((((.(((.(((((.(------(....))..))))).))).)))).....)))))...((......)))))))... ( -29.30)
>consensus
AAGGGCGGACGCGGAAGCUGAGAGUGCUGAGUAAAAAGAGGCAUCUGUUGAAGUUUUGUUUUU_CAUUUGAGGAACUUAAGGCGCUCUAAUUGCCUUAAUGGAGAAAAACGAUUCCGG
.(((((((..((....))..((((((((.........(((((.((....)).)))))..........(((((...)))))))))))))..)))))))..(((((........))))). (-23.91 = -24.48 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:40 2006