Locus 3260

Sequence ID X_DroMel_CAF1
Location 8,649,028 – 8,649,141
Length 113
Max. P 0.813222
window5346 window5347

overview

Window 6

Location 8,649,028 – 8,649,141
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 90.33
Mean single sequence MFE -20.67
Consensus MFE -18.34
Energy contribution -19.34
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.89
SVM decision value 0.66
SVM RNA-class probability 0.813222
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8649028 113 + 22224390
GGGGAGCUACAUACAUACAUAUAAACGAAAUAUUCCUCACCAACUAAUCACAAAAUACAAAACUAGAGGGGAGCCUUCAUUUCUGAACUUUUUGCUCCCUUUUUACUAUUUUU
(((((((............................(((.((..(((.................)))..)))))..((((....))))......)))))))............. ( -17.83)
>DroSec_CAF1 86186 105 + 1
GGGGAGCAAC--------AUAUAAAAUAAAUAUUCCUCACCAACUAAUCACAAAAUACAAAACUAGAGGGGAGCCUUCAUUUCUGAACUUUUUGCUCCCUUUUGCCUAGUUUU
((((((....--------..............))))))....................((((((((((((((((.((((....))))......))))))))....)))))))) ( -22.57)
>DroSim_CAF1 49790 105 + 1
GGGGUGCAAC--------AUAUAAACGAAAUAUUCCUCACCAACUAAUCACAAAAUACAAAACUAGAGGGGAGCCUUCAUUUCUGAACUUUUUGCUCCCUUUUUCCUAGUUUC
..((((....--------((((.......))))....))))..................(((((((((((((((.((((....))))......))))))))....))))))). ( -21.60)
>consensus
GGGGAGCAAC________AUAUAAACGAAAUAUUCCUCACCAACUAAUCACAAAAUACAAAACUAGAGGGGAGCCUUCAUUUCUGAACUUUUUGCUCCCUUUUUCCUAGUUUU
((((((..........................))))))....................((((((((((((((((.((((....))))......))))))))....)))))))) (-18.34 = -19.34 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,649,028 – 8,649,141
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -27.33
Consensus MFE -24.13
Energy contribution -24.80
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.88
SVM decision value 0.35
SVM RNA-class probability 0.698273
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8649028 113 - 22224390
AAAAAUAGUAAAAAGGGAGCAAAAAGUUCAGAAAUGAAGGCUCCCCUCUAGUUUUGUAUUUUGUGAUUAGUUGGUGAGGAAUAUUUCGUUUAUAUGUAUGUAUGUAGCUCCCC
..............((((((..........((((((....(((((..((((((...........))))))..)).)))...))))))...((((((....)))))))))))). ( -26.70)
>DroSec_CAF1 86186 105 - 1
AAAACUAGGCAAAAGGGAGCAAAAAGUUCAGAAAUGAAGGCUCCCCUCUAGUUUUGUAUUUUGUGAUUAGUUGGUGAGGAAUAUUUAUUUUAUAU--------GUUGCUCCCC
(((((((((.....((((((......((((....)))).)))))).))))))))).................((.(((.(((((.........))--------))).))))). ( -28.40)
>DroSim_CAF1 49790 105 - 1
GAAACUAGGAAAAAGGGAGCAAAAAGUUCAGAAAUGAAGGCUCCCCUCUAGUUUUGUAUUUUGUGAUUAGUUGGUGAGGAAUAUUUCGUUUAUAU--------GUUGCACCCC
(((((((((.....((((((......((((....)))).)))))).))))))))).................((((....((((.......))))--------....)))).. ( -26.90)
>consensus
AAAACUAGGAAAAAGGGAGCAAAAAGUUCAGAAAUGAAGGCUCCCCUCUAGUUUUGUAUUUUGUGAUUAGUUGGUGAGGAAUAUUUCGUUUAUAU________GUUGCUCCCC
..............((((((((....((((....))))..(((((..((((((...........))))))..)).)))..........................)))))))). (-24.13 = -24.80 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:05 2006