Locus 1404

Sequence ID X_DroMel_CAF1
Location 4,229,863 – 4,229,982
Length 119
Max. P 0.999819
window2240 window2241

overview

Window 0

Location 4,229,863 – 4,229,982
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.06
Mean single sequence MFE -33.37
Consensus MFE -22.93
Energy contribution -25.83
Covariance contribution 2.90
Combinations/Pair 1.20
Mean z-score -3.73
Structure conservation index 0.69
SVM decision value 4.07
SVM RNA-class probability 0.999781
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4229863 119 + 22224390
GUUGCCUAGUAACAAGUAACCAAAAAUCGAAAAAAUUAGCCACAAAAAUCAGCAUUUU-UAGGGCAAAUUGUUUGAUUUUUCGGCUUAAAUUACCAGGCAAACAGGAAUCCCAGAAGGUG
.((((((.((((....(((((((((((((((..((((.(((..((((((....)))))-)..))).)))).)))))))))).)).)))..)))).))))))...((....))........ ( -29.80)
>DroSim_CAF1 22825 120 + 1
AUCACUUGGUACCAAAAAUCCAAAAAUCUAUCUAAUUCGGCACAAAAAUGCGCAUUUUGUAAUGCAAAUUGUUUGAUUUUUCGGUUUAAAUUACCAGGCGAACAGGAAUCCCAGAAGGUG
.((.(((((((....(((((.(((((((...........(((......)))(((((....))))).........))))))).)))))....))))))).))...((....))........ ( -26.30)
>DroEre_CAF1 20422 119 + 1
AUCGCCUGGUGGCAAAAAUCGAAAAAGUCCUAAAAUAUGCCAUAAAAAUGCGCAUUUUG-UAGGCAAUUUUUAAAAUUUUUCGGUUUAAGUUACCAGGCGAACAGGAAUUCCAGAAGGUG
.((((((((((((..(((((((((((.....(((((.((((((((((.......)))))-).))))))))).....)))))))))))..))))))))))))...((....))........ ( -44.00)
>consensus
AUCGCCUGGUAACAAAAAUCCAAAAAUCCAUAAAAUUAGCCACAAAAAUGCGCAUUUUGUAAGGCAAAUUGUUUGAUUUUUCGGUUUAAAUUACCAGGCGAACAGGAAUCCCAGAAGGUG
.(((((((((((...(((((.(((((((.((((((((.(((...(((((....)))))....))).))))))))))))))).)))))...)))))))))))...((....))........ (-22.93 = -25.83 +   2.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 4,229,863 – 4,229,982
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.06
Mean single sequence MFE -34.00
Consensus MFE -23.98
Energy contribution -24.77
Covariance contribution 0.79
Combinations/Pair 1.20
Mean z-score -3.86
Structure conservation index 0.71
SVM decision value 4.16
SVM RNA-class probability 0.999819
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4229863 119 - 22224390
CACCUUCUGGGAUUCCUGUUUGCCUGGUAAUUUAAGCCGAAAAAUCAAACAAUUUGCCCUA-AAAAUGCUGAUUUUUGUGGCUAAUUUUUUCGAUUUUUGGUUACUUGUUACUAGGCAAC
..((....)).........((((((((((((...((((.((((((((((.((((.(((.((-(((((....))))))).))).)))).))).)))))))))))....)))))))))))). ( -37.40)
>DroSim_CAF1 22825 120 - 1
CACCUUCUGGGAUUCCUGUUCGCCUGGUAAUUUAAACCGAAAAAUCAAACAAUUUGCAUUACAAAAUGCGCAUUUUUGUGCCGAAUUAGAUAGAUUUUUGGAUUUUUGGUACCAAGUGAU
..((....)).........((((.((((.......((((((((.(((((.((((((((((....)))))((((....))))..........)))))))))).)))))))))))).)))). ( -27.71)
>DroEre_CAF1 20422 119 - 1
CACCUUCUGGAAUUCCUGUUCGCCUGGUAACUUAAACCGAAAAAUUUUAAAAAUUGCCUA-CAAAAUGCGCAUUUUUAUGGCAUAUUUUAGGACUUUUUCGAUUUUUGCCACCAGGCGAU
..((....)).........(((((((((..(..(((.(((((((((((((((..((((..-.(((((....)))))...))))..)))))))).))))))).)))..)..))))))))). ( -36.90)
>consensus
CACCUUCUGGGAUUCCUGUUCGCCUGGUAAUUUAAACCGAAAAAUCAAACAAUUUGCCUUACAAAAUGCGCAUUUUUGUGGCAAAUUUUAUAGAUUUUUGGAUUUUUGCUACCAGGCGAU
..((....)).........((((((((((...((((.(.((((((((((.((((((((....(((((....)))))...)))))))).))).))))))).)...)))).)))))))))). (-23.98 = -24.77 +   0.79)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:39 2006