Locus 4223

Sequence ID X_DroMel_CAF1
Location 11,061,485 – 11,061,576
Length 91
Max. P 0.776595
window6938 window6939

overview

Window 8

Location 11,061,485 – 11,061,576
Length 91
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 83.51
Mean single sequence MFE -17.62
Consensus MFE -10.06
Energy contribution -12.00
Covariance contribution 1.94
Combinations/Pair 1.24
Mean z-score -2.13
Structure conservation index 0.57
SVM decision value 0.04
SVM RNA-class probability 0.553173
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11061485 91 + 22224390
GUUUUGCGCGCUUUUUAUUAAGUGAUUAAAACAGAAAGCAAAAUAAGGA----AAGGCAACUCAAAAAAACAAAGUUACCAC-UAAGCUGCAAAAA-
.(((((((((((((((.((((....))))...)))))))..........----..((.((((...........)))).))..-...)).)))))).- ( -18.10)
>DroPse_CAF1 38785 95 + 1
GUUCAGCGCGCUUUUUAUUAAGUGAUUAAAACAGAAAGUACGACAAGCAAAAAAAGGGAGUGCAGAA-AAGAAAGUUUCCGCUUAAGCUAAGAGGA-
..........(((((..(((((((.............((((..(............)..)))).(((-(......)))))))))))...)))))..- ( -14.50)
>DroSim_CAF1 15393 91 + 1
GUUUUGCGCGCUUUUUAUUAAGUGAUUAAAACAGAAAGCAAAAUAAGGA----GAGGCAACUCAAAAAAACAAAGUUACCAC-UAAGCUGCGAAAA-
.(((((((((((((((.((((....))))...))))))).......((.----(((....))).....(((...))).))..-...)).)))))).- ( -20.70)
>DroEre_CAF1 15757 91 + 1
GUUUUGCGCGCUUUUUAUUAAGUGAUUAAAACAGAAAGCAAAAUAAGUA----GAGGCAACUCAAAAA-ACAAAGUUACCAC-UAAGCUGGAAAAAC
(((((....(((((((.((((....))))...)))))))..........----(((....)))..)))-)).......(((.-.....)))...... ( -17.20)
>consensus
GUUUUGCGCGCUUUUUAUUAAGUGAUUAAAACAGAAAGCAAAAUAAGGA____AAGGCAACUCAAAAAAACAAAGUUACCAC_UAAGCUGCAAAAA_
.(((((((((((((((.((((....))))...)))))))................((.((((...........)))).))......)).)))))).. (-10.06 = -12.00 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,061,485 – 11,061,576
Length 91
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 83.51
Mean single sequence MFE -19.23
Consensus MFE -10.93
Energy contribution -12.18
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -2.57
Structure conservation index 0.57
SVM decision value 0.54
SVM RNA-class probability 0.776595
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11061485 91 - 22224390
-UUUUUGCAGCUUA-GUGGUAACUUUGUUUUUUUGAGUUGCCUU----UCCUUAUUUUGCUUUCUGUUUUAAUCACUUAAUAAAAAGCGCGCAAAAC
-.((((((.((...-..((((((((.........))))))))..----..........(((((.((((..........)))).))))))))))))). ( -21.10)
>DroPse_CAF1 38785 95 - 1
-UCCUCUUAGCUUAAGCGGAAACUUUCUU-UUCUGCACUCCCUUUUUUUGCUUGUCGUACUUUCUGUUUUAAUCACUUAAUAAAAAGCGCGCUGAAC
-.....(((((....(((((((......)-))))))....................(..((((.((((..........)))).))))..)))))).. ( -16.60)
>DroSim_CAF1 15393 91 - 1
-UUUUCGCAGCUUA-GUGGUAACUUUGUUUUUUUGAGUUGCCUC----UCCUUAUUUUGCUUUCUGUUUUAAUCACUUAAUAAAAAGCGCGCAAAAC
-(((((((.....(-(.((((((((.........)))))))).)----).........(((((.((((..........)))).)))))))).)))). ( -19.30)
>DroEre_CAF1 15757 91 - 1
GUUUUUCCAGCUUA-GUGGUAACUUUGU-UUUUUGAGUUGCCUC----UACUUAUUUUGCUUUCUGUUUUAAUCACUUAAUAAAAAGCGCGCAAAAC
(((((....((.((-(.((((((((...-.....)))))))).)----))........(((((.((((..........)))).)))))))..))))) ( -19.90)
>consensus
_UUUUCGCAGCUUA_GUGGUAACUUUGUUUUUUUGAGUUGCCUC____UCCUUAUUUUGCUUUCUGUUUUAAUCACUUAAUAAAAAGCGCGCAAAAC
.........((......((((((((.........))))))))................(((((.((((..........)))).)))))))....... (-10.93 = -12.18 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:34 2006