Locus 7001

Sequence ID X_DroMel_CAF1
Location 17,535,981 – 17,536,095
Length 114
Max. P 0.815063
window11434 window11435

overview

Window 4

Location 17,535,981 – 17,536,095
Length 114
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 83.18
Mean single sequence MFE -23.15
Consensus MFE -15.34
Energy contribution -15.90
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.86
Structure conservation index 0.66
SVM decision value 0.40
SVM RNA-class probability 0.719671
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17535981 114 + 22224390
ACGCGAUUUUAAGCUCUCACUACUAAACCAUUCAUAAGAUUAAGAAGCAUCUGUUGGAUAGGAUUCUUUACAAUCACGGAUACAACUUCUUAAGAAUCGUUUCGUAUUAUUAUU
..((........))......(((.((((.((((.(((((...((..(.((((((..(((.(.........).))))))))).)..))))))).)))).)))).)))........ ( -17.60)
>DroSec_CAF1 28283 106 + 1
AUGGGUUUUUAUGCUCUCACUACUA-ACCAUUCUUAAGAUUUAGAAGCAUCU---GGCUAGGAUUCUUAACAACCACGGAUACAACUUCUUAAGAAUGGUUUCGUAUUAU----
..((((......))))....(((.(-(((((((((((((...((..(.((((---(....((...........)).))))).)..))))))))))))))))..)))....---- ( -25.40)
>DroSim_CAF1 17719 106 + 1
AUGGGUUUUUAUGCUCUCACUACUA-ACCAUUCUUAAGAUUUAGAAGCAUCU---GGCUAGGAUUCUUAACAAACACGGAUACAACUUCUUAAGAAUGGUUUCGUAUUAU----
..((((......))))....(((.(-(((((((((((((...((..(.((((---(.....(........).....))))).)..))))))))))))))))..)))....---- ( -25.00)
>DroEre_CAF1 23814 99 + 1
-------AUGGUGCUCUCAGUACCA-GCCAUACUUAAGAUUUAGAAGCAUCU---GGCUCGGAUUCUUUACAAUCAUUGGUACAACUUCUUAAGAAUGGUUUCGUAUAAU----
-------.((((((.....))))))-(((((.(((((((....((((.((((---(...))))).)))).((.....))........))))))).)))))..........---- ( -24.60)
>consensus
AUGGGUUUUUAUGCUCUCACUACUA_ACCAUUCUUAAGAUUUAGAAGCAUCU___GGCUAGGAUUCUUAACAAUCACGGAUACAACUUCUUAAGAAUGGUUUCGUAUUAU____
....................(((...(((((((((((((.....(((.((((........)))).)))...................)))))))))))))...)))........ (-15.34 = -15.90 +   0.56)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,535,981 – 17,536,095
Length 114
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 83.18
Mean single sequence MFE -24.38
Consensus MFE -16.91
Energy contribution -18.41
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.69
SVM decision value 0.66
SVM RNA-class probability 0.815063
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17535981 114 - 22224390
AAUAAUAAUACGAAACGAUUCUUAAGAAGUUGUAUCCGUGAUUGUAAAGAAUCCUAUCCAACAGAUGCUUCUUAAUCUUAUGAAUGGUUUAGUAGUGAGAGCUUAAAAUCGCGU
........(((.((((.((((.(((((((..(((((.((((((......)))).......)).)))))..))...))))).)))).)))).)))((((..........)))).. ( -21.51)
>DroSec_CAF1 28283 106 - 1
----AUAAUACGAAACCAUUCUUAAGAAGUUGUAUCCGUGGUUGUUAAGAAUCCUAGCC---AGAUGCUUCUAAAUCUUAAGAAUGGU-UAGUAGUGAGAGCAUAAAAACCCAU
----....(((..((((((((((((((((..(((((..((((((..........)))))---))))))..))...)))))))))))))-).)))((....))............ ( -31.30)
>DroSim_CAF1 17719 106 - 1
----AUAAUACGAAACCAUUCUUAAGAAGUUGUAUCCGUGUUUGUUAAGAAUCCUAGCC---AGAUGCUUCUAAAUCUUAAGAAUGGU-UAGUAGUGAGAGCAUAAAAACCCAU
----....(((..((((((((((((((((..(((((.(.(((.............))))---.)))))..))...)))))))))))))-).)))((....))............ ( -27.52)
>DroEre_CAF1 23814 99 - 1
----AUUAUACGAAACCAUUCUUAAGAAGUUGUACCAAUGAUUGUAAAGAAUCCGAGCC---AGAUGCUUCUAAAUCUUAAGUAUGGC-UGGUACUGAGAGCACCAU-------
----...........((((.(((((((............((((......)))).((((.---....)))).....))))))).)))).-((((.(.....).)))).------- ( -17.20)
>consensus
____AUAAUACGAAACCAUUCUUAAGAAGUUGUAUCCGUGAUUGUAAAGAAUCCUAGCC___AGAUGCUUCUAAAUCUUAAGAAUGGU_UAGUAGUGAGAGCAUAAAAACCCAU
........(((...(((((((((((((((..(((((...........................)))))..))...)))))))))))))...)))((....))............ (-16.91 = -18.41 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:44 2006