Locus 4540

Sequence ID X_DroMel_CAF1
Location 11,955,728 – 11,955,833
Length 105
Max. P 0.679308
window7468

overview

Window 8

Location 11,955,728 – 11,955,833
Length 105
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 89.54
Mean single sequence MFE -26.76
Consensus MFE -21.44
Energy contribution -20.88
Covariance contribution -0.56
Combinations/Pair 1.18
Mean z-score -1.53
Structure conservation index 0.80
SVM decision value 0.30
SVM RNA-class probability 0.679308
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11955728 105 - 22224390
AGAGCAUUCACCGUAAACGAAUGGAAUUUUGCUUUAUUA------UAUGCAAAUGUCUCCCAGCUUGUUUGCUCUACAUUUUUGUGGAAAUCCAUUUGGGUUUGUGUGUG---U
...((((.(((.((((((((.(((...(((((.......------...)))))......)))..))))))))((((((....))))))(((((....))))).))).)))---) ( -27.60)
>DroSec_CAF1 44140 104 - 1
AGAGCAUCCACCGUAAACGAAUGGAAUUUUGCUUUAUUA------UAUGUAAAUGUCUCCCAGCUUGUUUGCUCUACAUU-UUGUGGAAAUCCAUUUGAGUGUGUGUGGG---U
.....((((((.((((((((.(((...(((((.......------...)))))......)))..))))))))..((((((-(.((((....))))..))))))).)))))---) ( -27.80)
>DroSim_CAF1 22882 104 - 1
AGAGCAUCCACCGUAAACGAAUGGAAUUUUGCUUUAUUA------UAUGUAAAUGUCUCCCAGCUUGUUUGCUCUACAUU-UUGUGGAAAUCCAUUUGAGUGUGUGUGGG---U
.....((((((.((((((((.(((...(((((.......------...)))))......)))..))))))))..((((((-(.((((....))))..))))))).)))))---) ( -27.80)
>DroEre_CAF1 23459 113 - 1
AGAGCAUCCACUAUAAGCGAAUGGAAUUGUGCUUUACUACGAGUGUAUGUAAAUGUCUCCCAGCUUGUUUGCUCUACAUU-UCGUGGAAAUUCAUUUGGCUGUGUGUGUGGUGU
...((((((((....((((((((((.......(((.(((((((((((.(((((((..........)))))))..)))).)-)))))))))))))))).)))....))).))))) ( -28.41)
>DroYak_CAF1 22450 103 - 1
AGAGCAUCUACUAUAAACGAAUGGAAUUUUGCUUUACUA------UAUGUAAAUGUCUCCCAGCUUGUUUGCUCUACAUU-UUGUGGAAAUCCAUUUGAAUGUGUGUGUG----
...((((.(((......((((((((.(((..((((((..------...)))))........(((......))).......-..)..))).))))))))...))).)))).---- ( -22.20)
>consensus
AGAGCAUCCACCGUAAACGAAUGGAAUUUUGCUUUAUUA______UAUGUAAAUGUCUCCCAGCUUGUUUGCUCUACAUU_UUGUGGAAAUCCAUUUGAGUGUGUGUGUG___U
........(((((((..((((((((.......................(((((((..........)))))))((((((....))))))..))))))))..)))).)))...... (-21.44 = -20.88 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:41 2006