Locus 3394

Sequence ID X_DroMel_CAF1
Location 9,076,345 – 9,076,459
Length 114
Max. P 0.599231
window5557

overview

Window 7

Location 9,076,345 – 9,076,459
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.41
Mean single sequence MFE -37.42
Consensus MFE -23.03
Energy contribution -24.73
Covariance contribution 1.70
Combinations/Pair 1.29
Mean z-score -1.41
Structure conservation index 0.62
SVM decision value 0.13
SVM RNA-class probability 0.599231
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9076345 114 + 22224390
GGGCUUCCUCCUGCUUCUGUUCACUCUUAACGGCUUCCUCCACUUUAGGGGCGGCAUUUGGUGGGGGAGGCAGUUCCUGCUUGUCAGAAA---UAUUCUGAUUGGC---AGCCACUUCUG
((((((((.((..((..(((.(.(((((((.((......))...))))))).))))...))..)))))))).....(((((.((((((..---...)))))).)))---))))....... ( -41.70)
>DroSec_CAF1 3850 114 + 1
GGGCUUCCUCCUGCUUCUGUUCACUUUUAACGGCUUCCUCCAAUUUAGGGGCGGCAUUUGGUGGGGGAGGCAGUUCCUGCUUGUCAGAAA---UAUUCUGAUUGGC---AGCCACUUGUG
.(((......((((((((.((((((.......(((.((.((......)))).)))....))))))))))))))....((((.((((((..---...)))))).)))---))))....... ( -41.00)
>DroSim_CAF1 7746 114 + 1
GGGCUUUCUCCUGCUUCUGUUCACUCUUAACGGCUUCCUCUAAUUUAGGCGCGGCAUUUGGUGGGGGAGGCAGUUCCUGCUUGUCAGAAA---UAUUCUGAUUGGC---AGCCACUGGUG
((((........)))).....((((.......((((((((((......((...))......))))))))))(((..(((((.((((((..---...)))))).)))---))..))))))) ( -36.40)
>DroEre_CAF1 5723 113 + 1
-CGCUUCCUCCUGCUUUUGUUCACUCUUGACGGCUUCCUCCACUUUAGGGGCGGCAUUUGGUGGGGGAGGCAGUUCCUGUUUGGUAGAAA---CAUUCUGACUGGC---AACCACGUCUA
-.((((((.((..((..(((.(.(((((((.((......))...))))))).))))...))..)))))))).(((.(((.....))).))---).....((((((.---..))).))).. ( -32.70)
>DroYak_CAF1 3754 114 + 1
GGGCUUCCUCCUGCUUCUGUUCACUCUUAACGGCUUCCUCCACUUUAGGGGCGGCAUUUGGUGGGCGAGGCAGCUCCUGUUUGUUAGAAA---CAUUCUGAUUGGC---AGCCACUUCUA
.(((......(((((((.(((((((.......(((.((.((......)))).)))....))))))))))))))....(((..((((((..---...))))))..))---))))....... ( -38.00)
>DroAna_CAF1 5313 99 + 1
GCGACUCCUCUUUCUUCGGGA------UAAUAGGCUCAUC-----UUGGGG---CAC-UAGUGGGG------AUUCUUGCUUAACUGAACCCUCACUCUGGUUGCCCGAAGACGCUUGGG
(((...(((..(((....)))------....)))....((-----((.(((---(((-((((((((------.(((..........))).)))))))..)).))))).)))))))..... ( -34.70)
>consensus
GGGCUUCCUCCUGCUUCUGUUCACUCUUAACGGCUUCCUCCACUUUAGGGGCGGCAUUUGGUGGGGGAGGCAGUUCCUGCUUGUCAGAAA___CAUUCUGAUUGGC___AGCCACUUCUG
..(((((((((.((....))............(((.((((.......)))).))).......))))))))).(((...(((.(((((((......))))))).)))...)))........ (-23.03 = -24.73 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:19 2006