Locus 552

Sequence ID 2L_DroMel_CAF1
Location 1,708,430 – 1,708,547
Length 117
Max. P 0.841331
window892

overview

Window 2

Location 1,708,430 – 1,708,547
Length 117
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 78.79
Mean single sequence MFE -35.03
Consensus MFE -25.16
Energy contribution -25.33
Covariance contribution 0.17
Combinations/Pair 1.33
Mean z-score -1.54
Structure conservation index 0.72
SVM decision value 0.75
SVM RNA-class probability 0.841331
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1708430 117 - 22407834
AUUCCACUGGCGGUGCUGGACACAGGAAUAUGCUGGUGGAUAUUCACCUCGCUCGUGCAGACAACUCGCACUCUCCGACUGAGGAGGUGACUAAU-GCCAAUGAUGAAAUCUCAACAC
..(((((..(((.(.(((....))).)...)))..)))))...(((((((....((((((....)).)))).(((.....)))))))))).....-.....((.(((....))).)). ( -38.10)
>DroVir_CAF1 3326 113 - 1
AUUCCCCUGGCUGUACUGGAUACAGUCAUUUGUUGGUGGAUAUUUACAUCGCUCGUGCAGACCACACGCACGUUGCGUCUGCGCAGGUAAGUACAUACAUAAUAUGCACU-----CAC
.......((((((((.....))))))))...((.((((.((((((((.(..(..((((((((((.((....)))).))))))))..)..)))).......))))).))))-----.)) ( -33.01)
>DroSec_CAF1 3081 117 - 1
AUUCCACUGGCGGUGCUGGACACAGGAAUAUGCUGGUGGAUUUUCACCUCGCUCGUGCAGACCACACGCACUCUCCGACUGAGGAGGUGACUAAU-ACAAAUUAUGAAAUCUUAACAC
..(((((..(((.(.(((....))).)...)))..)))))...(((((((((..(((.....)))..)).(((.......)))))))))).....-...................... ( -36.70)
>DroSim_CAF1 9897 117 - 1
AUUCCACUGGCGGUGCUGGACACAGGAAUAUGCUGGUGGAUUUUCACCUCGCUCGUGCAGACCACACGCACUCUCCGACUGAGGAGGUGACUAAU-ACAAAUUAUGAAAUCUUAACAC
..(((((..(((.(.(((....))).)...)))..)))))...(((((((((..(((.....)))..)).(((.......)))))))))).....-...................... ( -36.70)
>DroWil_CAF1 5494 115 - 1
AUUCCAUUGGCAGUGCUCGACACGGGCAUUUGUUGGUGGAUAUUCACAUCAUUGGUCCAGACCACUAGGACACUCAGAUUGCGAAGGUAAGCUAA-GCUAUUUAUA--UUCUCAUCUC
..(((((..((((((((((...)))))).))))..)))))..............((((((....)).)))).((.((.((((....)))).)).)-).........--.......... ( -31.70)
>DroYak_CAF1 8711 116 - 1
AUUCCACUGGCGGUGCUGGACACGGGAAUAUGCUGGUGGAUUUUCACAUCGCUCGUGCAGACCACUCGCACUCUCAGACUUAGAAGGUGACUAAU-GCGAAUGAUG-GAUGAUUACAC
..(((((..(((.(.(((....))).)...)))..)))))..((((((((((..((((((....)).)))).............((....))...-))).))).))-))......... ( -34.00)
>consensus
AUUCCACUGGCGGUGCUGGACACAGGAAUAUGCUGGUGGAUAUUCACAUCGCUCGUGCAGACCACACGCACUCUCCGACUGAGGAGGUGACUAAU_ACAAAUUAUGAAAUCUUAACAC
..(((((..(((.(.(((....))).)...)))..)))))...((((.......((((.........)))).((((......))))))))............................ (-25.16 = -25.33 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:09 2006