Locus 681

Sequence ID X_DroMel_CAF1
Location 1,899,630 – 1,899,727
Length 97
Max. P 0.861883
window1093 window1094

overview

Window 3

Location 1,899,630 – 1,899,727
Length 97
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 89.31
Mean single sequence MFE -22.20
Consensus MFE -17.75
Energy contribution -17.87
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.72
Structure conservation index 0.80
SVM decision value 0.83
SVM RNA-class probability 0.861883
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1899630 97 + 22224390
GGCACUGCCACUGAUUUAAA---UCACUUUUGUAUCAUUUUCAUUUCUGAUUGGUGCAUAAAUUAGAAUAU------UAUAUCAGUGGCACAUUUCAUUUUCGUUA
.....((((((((((.(((.---...((..(((((((...(((....))).)))))))......))....)------)).))))))))))................ ( -23.50)
>DroSec_CAF1 374 106 + 1
GGCACUACCACUGAUUUAAAUAAUCACUUUUGUAUCAUUUUCACUUCUGAUUGGUGCAGAAAUUCGAAUAUUCUCUUUAUAUCAGUGGCCCAUUUCGUUUUUGUUA
((.....((((((((.((((.......((((((((((...(((....))).))))))))))....((......)))))).)))))))).))............... ( -22.70)
>DroSim_CAF1 398 106 + 1
GGCACUACUACUGAUUUAAAUAAUCACUUUUGUAUCAUUUUCACUUCUGAUUGGUGCAGAAAUUCGAAUAUUCUCUUUAUAUCAGUGGCCCAUUUCGUUUUCGUUA
((.....((((((((.((((.......((((((((((...(((....))).))))))))))....((......)))))).)))))))).))............... ( -20.40)
>consensus
GGCACUACCACUGAUUUAAAUAAUCACUUUUGUAUCAUUUUCACUUCUGAUUGGUGCAGAAAUUCGAAUAUUCUCUUUAUAUCAGUGGCCCAUUUCGUUUUCGUUA
.......((((((((............((((((((((...(((....))).))))))))))......(((.......))))))))))).................. (-17.75 = -17.87 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,899,630 – 1,899,727
Length 97
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 89.31
Mean single sequence MFE -18.77
Consensus MFE -16.54
Energy contribution -16.77
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -1.56
Structure conservation index 0.88
SVM decision value -0.03
SVM RNA-class probability 0.520803
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1899630 97 - 22224390
UAACGAAAAUGAAAUGUGCCACUGAUAUA------AUAUUCUAAUUUAUGCACCAAUCAGAAAUGAAAAUGAUACAAAAGUGA---UUUAAAUCAGUGGCAGUGCC
................((((((((((...------.....................(((....)))((((.((......)).)---)))..))))))))))..... ( -20.10)
>DroSec_CAF1 374 106 - 1
UAACAAAAACGAAAUGGGCCACUGAUAUAAAGAGAAUAUUCGAAUUUCUGCACCAAUCAGAAGUGAAAAUGAUACAAAAGUGAUUAUUUAAAUCAGUGGUAGUGCC
.................(((((((((.................(((((((.......)))))))..(((((((((....)).)))))))..)))))))))...... ( -21.30)
>DroSim_CAF1 398 106 - 1
UAACGAAAACGAAAUGGGCCACUGAUAUAAAGAGAAUAUUCGAAUUUCUGCACCAAUCAGAAGUGAAAAUGAUACAAAAGUGAUUAUUUAAAUCAGUAGUAGUGCC
................((((((((((.................(((((((.......)))))))..(((((((((....)).)))))))..))))))....).))) ( -14.90)
>consensus
UAACGAAAACGAAAUGGGCCACUGAUAUAAAGAGAAUAUUCGAAUUUCUGCACCAAUCAGAAGUGAAAAUGAUACAAAAGUGAUUAUUUAAAUCAGUGGUAGUGCC
.................(((((((((..........((((...(((((((.......)))))))...)))).(((....))).........)))))))))...... (-16.54 = -16.77 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:59 2006