Locus 1770

Sequence ID 2L_DroMel_CAF1
Location 4,838,849 – 4,838,941
Length 92
Max. P 0.766622
window2844

overview

Window 4

Location 4,838,849 – 4,838,941
Length 92
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 74.11
Mean single sequence MFE -27.44
Consensus MFE -10.59
Energy contribution -11.04
Covariance contribution 0.45
Combinations/Pair 1.32
Mean z-score -1.88
Structure conservation index 0.39
SVM decision value 0.52
SVM RNA-class probability 0.766622
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4838849 92 + 22407834
CAAGCACACACUAACGCACACCCACCCGUGACAUAUAUGUACAUACCUGCAUCUGCAUGUGUAUGAGUGUGUGUGUGUGAG-------AGAGGGCGUAA
...((...(.((.((((((((.(((.((((.((((((((((......)))))....))))))))).))).))))))))...-------)).).)).... ( -27.80)
>DroSec_CAF1 2314 84 + 1
CAAGCACAUACUAACGCACACCCACCCGUGACAUU--------UACCUGCAUCUGCUUGUUUAUGAGCGUGUGUGUGUGUG-------AGAGGGCGUAA
...((.....((..(((((((.(((.(((..(((.--------.((..((....))..))..))).))).))).)))))))-------..)).)).... ( -26.80)
>DroSim_CAF1 2377 84 + 1
CAAGCACACACUAACGCACACCCACCCGUGACAUU--------UACCUGCAUCUGCUUGUGUAUGAGCGUGUGUGUGUGUG-------AGAGGGCGAUA
...((.....((..(((((((.(((.(((..(((.--------(((..((....))..))).))).))).))).)))))))-------..)).)).... ( -27.20)
>DroEre_CAF1 2341 91 + 1
CAAGCACACACAAACGCAUGCCCACCCGUGACAUU--------UGCCUGCAUGUCUAUGUGUGUGAGUGUGUGUGGCCGUGUCCGCGAAGAGAGUGGAA
....((((((((..(((((((.....((((.((..--------....)))))).....)))))))..))))))))......(((((.......))))). ( -30.60)
>DroYak_CAF1 2376 70 + 1
CAAGCACACACAAACA------CACCCGUGACAUU--------UUCCUGUAUGUAUGUGUGUGUG--UGUGUAUG-------------AGAGGGAGGAA
((.(((((((((.(((------((..((((.((..--------....))))))..))))).))))--))))).))-------------........... ( -24.80)
>consensus
CAAGCACACACUAACGCACACCCACCCGUGACAUU________UACCUGCAUCUGCAUGUGUAUGAGUGUGUGUGUGUGUG_______AGAGGGCGGAA
...((((((((..((((.....((....)).................(((((......)))))...))))))))))))..................... (-10.59 = -11.04 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:45 2006