Locus 1131

Sequence ID 3L_DroMel_CAF1
Location 3,299,346 – 3,299,449
Length 103
Max. P 0.911666
window1762

overview

Window 2

Location 3,299,346 – 3,299,449
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.35
Mean single sequence MFE -33.06
Consensus MFE -19.01
Energy contribution -18.45
Covariance contribution -0.56
Combinations/Pair 1.33
Mean z-score -2.09
Structure conservation index 0.58
SVM decision value 1.08
SVM RNA-class probability 0.911666
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3299346 103 + 23771897
GCAGUGCCAGUCUGAAGUGCUGGUGCGAACAAUGCUGAGGAUCCUC--AUCGUCCAAUAUGUUUGA---CACAUAUG------------UGUGUCAUAUGUUUUUUAUUGUUUUGAAAAG
...(..(((((.......)))))..)((((((((.((((....)))--)......((((((..(((---((((....------------)))))))))))))...))))))))....... ( -29.60)
>DroSim_CAF1 5292 120 + 1
GCAGUGCCAGUCUGAAGUGCUGGUGCGAACAAUGCUGAGGAUCCUCACAUCGGCCAACGUGCUCAAAUUUACAUAUGGUUGUCCGCAUAUGUUUAAUGUAUUUUUUAUUGUUUUGAAAAG
((((..(((((.......)))))..)(((((((((((((....))))...((((((..(((........)))...))))))...)))).)))))..)))..((((((......)))))). ( -29.80)
>DroEre_CAF1 5200 114 + 1
GCAGUGCCAGCCUGAAGUGCUGGUGCGAACAAUGCUGAGGCCCCUC--AGCUCUCAACGUGUUCAUAUUCA----GGAUUGUCCACACAUGCUUGAUGUGUUUUUUAUUGUUUUGAAAAA
...(..((((((....).)))))..)(((((..((((((....)))--)))........)))))...((((----((((.....((((((.....))))))........))))))))... ( -37.52)
>DroYak_CAF1 4505 114 + 1
GCAGUGCCAGCCUGAAGUGCUGGUGCGAAAACUGCUGAGGUCCCUC--AGCUCUCAAAGUGUUCAUAUUCU----GGAAUAUCCACACAUGUUUCAAGCAUUUUUUAUUGUUUUAAAAAA
((.(..((((((....).)))))..)((((...((((((....)))--))).......((((..(((((..----..)))))..))))...))))..)).(((((((......))))))) ( -35.30)
>consensus
GCAGUGCCAGCCUGAAGUGCUGGUGCGAACAAUGCUGAGGACCCUC__AGCGCCCAACGUGUUCAAAUUCA____GGAUUGUCCACACAUGUUUCAUGUAUUUUUUAUUGUUUUGAAAAA
((((..((((((....).)))))..)(((((.((.((((((........)).)))).))))))).........................)))........(((((((......))))))) (-19.01 = -18.45 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:57 2006