Locus 5481

Sequence ID 3R_DroMel_CAF1
Location 14,456,418 – 14,456,538
Length 120
Max. P 0.560788
window8942

overview

Window 2

Location 14,456,418 – 14,456,538
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.86
Mean single sequence MFE -36.91
Consensus MFE -27.80
Energy contribution -27.93
Covariance contribution 0.13
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.75
SVM decision value 0.05
SVM RNA-class probability 0.560788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14456418 120 + 27905053
AAUUCCAAAAAUCCAUUACCCACCGGGAAUGGAUUUGCCCAGCUCGAGAUACUCCCGAACCGAGGGGCUAAGAAAGUUGUCCGGUAUCUCCGGAAGAUCCUUCUCCUGACUGCCAUUCUC
........(((((((((.(((...))))))))))))((((..((((..............))))))))..((((.(((.(((((.....))))).)))..))))................ ( -33.04)
>DroSec_CAF1 13836 120 + 1
GAUUCCAAAAAUCCAUUACCCACCGGGAAUGGAUUUGCCCAGCUCCAGAUACUCCCGAACCGAGGGGCUAAGAAAGUUGUCCGGUAUCUCCGGAAGAUCCUUCUCCUGGCUGCCGUUCUC
........(((((((((.(((...)))))))))))).....((.((((.((..(((.......)))..))((((.(((.(((((.....))))).)))..)))).))))..))....... ( -35.00)
>DroSim_CAF1 14410 120 + 1
GAUUCCAAAAAUCCAUUACGCACCGGGAAUGGAUUUGCCCAGCUCCAGAUACUCCCGAACCGAGGGGCUAAGAAAGUUGUCCGGUAUCUCCGGAAGAUCCUUCUCCUGGCUGCCGUUAUC
...................(((((((((..((((((...(((((.....((..(((.......)))..))....)))))(((((.....)))))))))))...)))))).)))....... ( -35.60)
>DroYak_CAF1 15871 111 + 1
GAU-----AAUUUCGUUA----CCGGGAAUGGAUUUUCCCAGCUCUAGGUACUCGCGAACCGAGGGGCUAAGGAAGUUGUCCGGUAUCUCUGGGAGAUCCUUCUCCUGGCUGCCGUUCUC
(((-----((((((.((.----..(((((......)))))((((((.(((........)))..)))))))).)))))))))(((((...(..(((((....)))))..).)))))..... ( -44.00)
>consensus
GAUUCCAAAAAUCCAUUACCCACCGGGAAUGGAUUUGCCCAGCUCCAGAUACUCCCGAACCGAGGGGCUAAGAAAGUUGUCCGGUAUCUCCGGAAGAUCCUUCUCCUGGCUGCCGUUCUC
......................((((((..((((((...(((((.....((..(((.......)))..))....)))))(((((.....)))))))))))...))))))........... (-27.80 = -27.93 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:09 2006