Locus 5703

Sequence ID 2R_DroMel_CAF1
Location 18,062,521 – 18,062,616
Length 95
Max. P 0.921029
window9132 window9133

overview

Window 2

Location 18,062,521 – 18,062,616
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 79.08
Mean single sequence MFE -20.95
Consensus MFE -13.51
Energy contribution -14.58
Covariance contribution 1.06
Combinations/Pair 1.20
Mean z-score -2.12
Structure conservation index 0.64
SVM decision value 1.14
SVM RNA-class probability 0.921029
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18062521 95 + 20766785
CUUAUAAAGUAUAUCUCAAUCGCUGUUAACACAAUAAGAGUGUGAAAACUAAAUGAAGUAUCUAUGAUUUUCAAUACUUCAUUUAGGUUUCAUGC
....................((((.(((......))).))))(((((.(((((((((((((...((.....))))))))))))))).)))))... ( -22.50)
>DroSim_CAF1 20214 93 + 1
CUUAUAAAGUAUAUCUCUAUCGCUGUUAACACGAUAA--GUGUGAAAACUAAAUGAAGUAUGGAUGAUUUUCAAUACUCCAUUUAGGUUUCAUGC
.................(((((.((....))))))).--((((((((.(((((((.(((((.((......)).))))).))))))).)))))))) ( -24.40)
>DroEre_CAF1 20400 91 + 1
UAUAUAAAGCAUAACUGCUUCGCUGUUAACUCGCAAA--GUGUGAAAAAUAAGUGAAGUAU--AUAAUUUACUAAGCAACAUUUAGGUUUCAUGC
........((((((((((((((((......((((...--..))))......))))))))).--........(((((.....))))))))..)))) ( -18.50)
>DroYak_CAF1 20811 93 + 1
CUUAUGAGGCAUAACUGUUUCGCUGUUAACUCGCAAA--GUGUGAAAACUAAGCAGAGUUUAGAUGAUUUUCCAAGCUGCAUUUAGCUGUCAUGC
.....((((((....)))))).(((..(((((((..(--((......)))..)).))))))))(((((......(((((....)))))))))).. ( -18.40)
>consensus
CUUAUAAAGCAUAACUCUAUCGCUGUUAACACGAAAA__GUGUGAAAACUAAAUGAAGUAU_GAUGAUUUUCAAAACUACAUUUAGGUUUCAUGC
.......(((...........)))...............((((((((.(((((((.(((((.((......)).))))).))))))).)))))))) (-13.51 = -14.58 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,062,521 – 18,062,616
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 79.08
Mean single sequence MFE -21.62
Consensus MFE -11.49
Energy contribution -14.43
Covariance contribution 2.94
Combinations/Pair 1.21
Mean z-score -2.61
Structure conservation index 0.53
SVM decision value 1.13
SVM RNA-class probability 0.920272
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18062521 95 - 20766785
GCAUGAAACCUAAAUGAAGUAUUGAAAAUCAUAGAUACUUCAUUUAGUUUUCACACUCUUAUUGUGUUAACAGCGAUUGAGAUAUACUUUAUAAG
...(((((.((((((((((((((..........)))))))))))))).)))))..(((..(((((.......))))).))).............. ( -24.80)
>DroSim_CAF1 20214 93 - 1
GCAUGAAACCUAAAUGGAGUAUUGAAAAUCAUCCAUACUUCAUUUAGUUUUCACAC--UUAUCGUGUUAACAGCGAUAGAGAUAUACUUUAUAAG
((..((((.(((((((((((((.((......)).))))))))))))).))))((((--.....)))).....)).((((((.....))))))... ( -26.00)
>DroEre_CAF1 20400 91 - 1
GCAUGAAACCUAAAUGUUGCUUAGUAAAUUAU--AUACUUCACUUAUUUUUCACAC--UUUGCGAGUUAACAGCGAAGCAGUUAUGCUUUAUAUA
((((((.....(((((......((((......--.)))).....)))))......(--(((((.........))))))...))))))........ ( -12.40)
>DroYak_CAF1 20811 93 - 1
GCAUGACAGCUAAAUGCAGCUUGGAAAAUCAUCUAAACUCUGCUUAGUUUUCACAC--UUUGCGAGUUAACAGCGAAACAGUUAUGCCUCAUAAG
(((((((.((.....)).(((((((......))))(((((.((..(((......))--)..)))))))...)))......)))))))........ ( -23.30)
>consensus
GCAUGAAACCUAAAUGAAGCAUUGAAAAUCAUC_AUACUUCACUUAGUUUUCACAC__UUAGCGAGUUAACAGCGAAACAGAUAUACUUUAUAAG
((.(((((.((((((((((((((((......)))))))))))))))).)))))............(....).))..................... (-11.49 = -14.43 +   2.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:14 2006