Locus 3699

Sequence ID 2R_DroMel_CAF1
Location 12,276,492 – 12,276,598
Length 106
Max. P 0.551259
window6012

overview

Window 2

Location 12,276,492 – 12,276,598
Length 106
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 79.92
Mean single sequence MFE -23.60
Consensus MFE -14.68
Energy contribution -17.10
Covariance contribution 2.42
Combinations/Pair 1.15
Mean z-score -1.48
Structure conservation index 0.62
SVM decision value 0.04
SVM RNA-class probability 0.551259
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12276492 106 + 20766785
AACCAGAUCUAGACUAGGUAAGACUACUUCCAACUUACCUUCCUGCACUUCAAUGCCCUCGGCUUUGAGUAAGUCCCGCAGCUUCUGGAUCUCCUCCUUGAGUUCG
....(((((((((..(((((((...........)))))))..(((((((((((.(((...))).))))...)))...))))..))))))))).............. ( -27.30)
>DroVir_CAF1 168623 94 + 1
AACUCC-----------AUAAAUUGAGCU-GCACUUACCCUCCUGCACCUCAAUGCCCUCGGCCUUGAGCAGAUCGCGCAGUUUUUGUAUCUCCUCUUUGAGCUCG
......-----------.......(((((-.((..(((....((((...((((.(((...))).))))((.....)))))).....))).........))))))). ( -18.60)
>DroSim_CAF1 133976 106 + 1
AACCAGAUCUAGACUAGGUAAGACUACUUCCAACUUACCUUCCUGCACUUCAAUGCCCUCGGCUUUGAGUAAAUCCCGCAGCUUCUGGAUCUCCUCCUUGAGUUCG
....(((((((((..(((((((...........)))))))..(((((((.(((.(((...))).)))))).......))))..))))))))).............. ( -26.31)
>DroEre_CAF1 146558 106 + 1
AACCAGAUCUAGACUAGGUAAGACUACUUCCAACUUACCUUCCUGCACUUCAAUGCCCUCGGCUUUGAGUAAGUCCCGCAGCUUCUGGAUCUCCUCCUUAAGUUCG
....(((((((((..(((((((...........)))))))..(((((((((((.(((...))).))))...)))...))))..))))))))).............. ( -27.30)
>DroYak_CAF1 142125 106 + 1
AACCAGAACUAGACUAGGUAAGACUAUUUCCAACUCACCUUCCUGCACUUCAAUGCCCUCGGCUUUGAGUAAGUCCCGCAGCUUCUGGAUCUCCUCCUUGAGUUCG
..((((((.......((((.((...........)).))))..(((((((((((.(((...))).))))...)))...)))).))))))..(((......))).... ( -20.80)
>DroPer_CAF1 146836 97 + 1
AA--AGUUAAGGAUCUGCUGAGAAUG-------CUUACCUUCCUGCACUUCGAUGCCUUCGGCCUUCAGAAGAUCGCGCAGCUUCUGUAUCUCCUCCUUAAGUUCG
.(--(.((((((((((.(((((((((-------(..........))).)))...(((...)))..)))).)))))..((((...))))........))))).)).. ( -21.30)
>consensus
AACCAGAUCUAGACUAGGUAAGACUACUUCCAACUUACCUUCCUGCACUUCAAUGCCCUCGGCUUUGAGUAAAUCCCGCAGCUUCUGGAUCUCCUCCUUGAGUUCG
....(((((((((...((((((...........))))))...((((...((((.(((...))).))))(.......)))))..))))))))).............. (-14.68 = -17.10 +   2.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:11 2006